Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 74 of 120
Found at i:22268344 original size:25 final size:25
Alignment explanation
Indices: 22268257--22268358 Score: 80
Period size: 25 Copynumber: 3.9 Consensus size: 25
22268247 TAAAATTATA
* * *
22268257 AAAAATTA-TAAATATTATAAAATT
1 AAAAATTATTAAAAATTAAAAAAAT
* *
22268281 ATAAAGTAATATAAAAATTATAAAATTAAT
1 A-AAAATTAT-TAAAAATTA-AAAA--AAT
* *
22268311 AAAATTTATTTAAAATTAAAAAAAT
1 AAAAATTATTAAAAATTAAAAAAAT
*
22268336 AAAAATTATTAAAAAATAAAAAA
1 AAAAATTATTAAAAATTAAAAAA
22268359 TTTATTAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
24 1 0.02
25 28 0.46
27 12 0.20
28 11 0.18
29 6 0.10
30 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (25 bp):
AAAAATTATTAAAAATTAAAAAAAT
Found at i:22268895 original size:9 final size:10
Alignment explanation
Indices: 22268814--22268906 Score: 55
Period size: 10 Copynumber: 9.3 Consensus size: 10
22268804 CCAGTTAAAG
*
22268814 TTTTTATGAT
1 TTTTTATAAT
* * *
22268824 TTTTTTTTAC
1 TTTTTATAAT
*
22268834 TTTTTATAAC
1 TTTTTATAAT
*
22268844 TTTATATCAA-
1 TTTTTAT-AAT
* *
22268854 TTTTAAT-AC
1 TTTTTATAAT
*
22268863 TTTGTATAAT
1 TTTTTATAAT
22268873 TTTTTATAAT
1 TTTTTATAAT
*
22268883 TTTTTATGAT
1 TTTTTATAAT
*
22268893 TTTTATAGAAT
1 TTTT-TATAAT
22268904 TTT
1 TTT
22268907 AATGGTTTTG
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
8 1 0.02
9 5 0.08
10 49 0.77
11 9 0.14
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:22268899 original size:29 final size:29
Alignment explanation
Indices: 22268814--22268899 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 29
22268804 CCAGTTAAAG
* *
22268814 TTTTTATGATTTTTTTTTACTTTTTATAAC
1 TTTTTAT-AATTTTTTATACTTTTTATAAC
* * * *
22268844 TTTATATCAA-TTTTAATACTTTGTATAAT
1 TTTTTAT-AATTTTTTATACTTTTTATAAC
22268873 TTTTTATAATTTTTTATGA-TTTTTATA
1 TTTTTATAATTTTTTAT-ACTTTTTATA
22268900 GAATTTTAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 2 0.05
29 34 0.77
30 8 0.18
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (29 bp):
TTTTTATAATTTTTTATACTTTTTATAAC
Found at i:22268906 original size:20 final size:19
Alignment explanation
Indices: 22268873--22268948 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
22268863 TTTGTATAAT
* *
22268873 TTTTTATAATTTTTTATGA
1 TTTTTATAAATTTTAATGA
*
22268892 TTTTTATAGAATTTTAATGG
1 TTTTTATA-AATTTTAATGA
* *
22268912 TTTTGATAAAATTTTAAATTA
1 TTTTTAT-AAATTTT-AATGA
*
22268933 TGTTTTATTAATTTTA
1 T-TTTTATAAATTTTA
22268949 TATATTTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
19 8 0.18
20 21 0.47
21 11 0.24
22 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTATAAATTTTAATGA
Found at i:22268991 original size:27 final size:27
Alignment explanation
Indices: 22268944--22269005 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
22268934 GTTTTATTAA
* *
22268944 TTTTATATATTTTAATTTA-TTAGATT
1 TTTTATATATTTTAATATATTTAGAAT
*
22268970 CTTTTATAT-TTTTTATAATATTTAGAAT
1 -TTTTATATATTTTAAT-ATATTTAGAAT
22268998 TTTTATAT
1 TTTTATAT
22269006 GTTTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 6 0.20
27 18 0.60
28 6 0.20
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (27 bp):
TTTTATATATTTTAATATATTTAGAAT
Found at i:22268993 original size:18 final size:17
Alignment explanation
Indices: 22268972--22269046 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 17
22268962 ATTAGATTCT
22268972 TTTATATTTTTTATAATA
1 TTTATATTTTTTAT-ATA
* * *
22268990 TTTAGAATTTTTATATG
1 TTTATATTTTTTATATA
*
22269007 TTTATATTAATTTTCATATT
1 TTTATATT--TTTT-ATATA
*
22269027 TTTAAATTTTTTA-ATA
1 TTTATATTTTTTATATA
22269043 TTTA
1 TTTA
22269047 ATAATTTGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
16 6 0.13
17 9 0.20
18 16 0.35
19 4 0.09
20 11 0.24
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTTATATA
Found at i:22271944 original size:22 final size:22
Alignment explanation
Indices: 22271916--22271959 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22271906 GTATGATTAT
*
22271916 ACATAGCCAAAGACGACTTTGA
1 ACATAGCCAAAGACGACGTTGA
*
22271938 ACATAGCTAAAGACGACGTTGA
1 ACATAGCCAAAGACGACGTTGA
22271960 GCTATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (22 bp):
ACATAGCCAAAGACGACGTTGA
Found at i:22276624 original size:15 final size:15
Alignment explanation
Indices: 22276598--22276669 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
22276588 CTCAATCTCA
22276598 ATTTTC-TTTTCTTC
1 ATTTTCTTTTTCTTC
*
22276612 ATTTTCTTTTTCTCCC
1 ATTTTCTTTTTCT-TC
22276628 AGTTTT-TTTTAT-TTC
1 A-TTTTCTTTT-TCTTC
*
22276643 TTTTTCTTTTTCTTC
1 ATTTTCTTTTTCTTC
*
22276658 TTTTTCATTTTT
1 ATTTTC-TTTTT
22276670 ATTACAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
14 11 0.23
15 20 0.42
16 12 0.25
17 5 0.10
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (15 bp):
ATTTTCTTTTTCTTC
Found at i:22276652 original size:16 final size:17
Alignment explanation
Indices: 22276633--22276672 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
22276623 CTCCCAGTTT
22276633 TTTTTATTTCTTTTTC-
1 TTTTTATTTCTTTTTCA
*
22276649 TTTTT-CTTCTTTTTCA
1 TTTTTATTTCTTTTTCA
22276665 TTTTTATT
1 TTTTTATT
22276673 ACAATATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.45
16 10 0.50
17 1 0.05
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTATTTCTTTTTCA
Found at i:22277539 original size:18 final size:18
Alignment explanation
Indices: 22277512--22277552 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22277502 TTTCTTTTTG
*
22277512 TTTC-TTTTTTTTATACT
1 TTTCGTTTTTTTTATAAT
22277529 TTTCGTTTTTTTTATAAT
1 TTTCGTTTTTTTTATAAT
22277547 TTTCGT
1 TTTCGT
22277553 AACTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTCGTTTTTTTTATAAT
Found at i:22283268 original size:18 final size:18
Alignment explanation
Indices: 22283222--22283260 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
22283212 AAAATATGAA
22283222 GTTATCACTATGAGTAAT
1 GTTATCACTATGAGTAAT
22283240 GTTATCACTATGAGTAAT
1 GTTATCACTATGAGTAAT
22283258 GTT
1 GTT
22283261 GTGACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (18 bp):
GTTATCACTATGAGTAAT
Found at i:22285808 original size:22 final size:20
Alignment explanation
Indices: 22285783--22285837 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
22285773 AAAAAAATTC
*
22285783 AACAAAAAGAAATATGAAATAT
1 AACAAAAAGAAA-AT-AAAAAT
*
22285805 AACATAAAGAAAATAAAAAT
1 AACAAAAAGAAAATAAAAAT
22285825 AA-AAATAAGAAAA
1 AACAAA-AAGAAAA
22285838 AAAGAAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.48
21 2 0.07
22 11 0.38
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (20 bp):
AACAAAAAGAAAATAAAAAT
Found at i:22287999 original size:18 final size:18
Alignment explanation
Indices: 22287965--22287999 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22287955 ACCCTAAGTG
22287965 AAAACTAAGAATGAAATA
1 AAAACTAAGAATGAAATA
22287983 AAAACCTAAGAAT-AAAT
1 AAAA-CTAAGAATGAAAT
22288000 TTTGTCTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAACTAAGAATGAAATA
Found at i:22297228 original size:516 final size:515
Alignment explanation
Indices: 22295718--22302408 Score: 8697
Period size: 516 Copynumber: 13.0 Consensus size: 515
22295708 CCCACATACA
*
22295718 TTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
*
22295783 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAAATGCAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* *
22295848 CTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACATATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
* * *
22295913 CTATATAATGATCCGAAACTGCTCACACGAGATGTCGAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
*
22295978 CCATCAAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
* *
22296043 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTCAAACTCC
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* * *
22296108 CTAATTGTATACACACATTAGTTATTTTGAATAAGAATTCTCTATGCATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* * *
22296173 CATCGTAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCATGAACCGT
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACATCA-TTCAATGTCATGAATCGC
* * *
22296234 TTCATATTTATCAAGTATTTCCTATTTTACGGTTTGATCCATTTTATATAAAAAGCCGTTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* * *
22296299 TACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAATGCAGAAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* * *
22296364 CTTCCACATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCGGGGACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
*
22296429 CTATATAATGATCCGAT-CTGCTCACTCGAGCTGTCAAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
*
22296493 CCATCGAATAAGTCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
*
22296558 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* *
22296623 CTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAGATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
*
22296688 CATCATAAACATGCTATCCAACAACATACCATTCCCATATCAGTTCAATGTCATGAATCGC
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACATCA-TTCAATGTCATGAATCGC
* *
22296749 TTCATATTTATCAAGTATTTCTTATTTTCCGATTTGATCCACTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* * * *
22296814 TACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACAAAAATGCAGAAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* * *
22296879 CTTCCATATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCAAGGACTAATCATCACATATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
* * *
22296944 CTATATAATGATCCGAAACTGCTCACACGAGATGTCGAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
*
22297009 CCATCAAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
* *
22297074 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTCAAACTCC
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* * *
22297139 CTAATTGTATACACACATTAGTTATTTTGAATAAGAATTCTCTATGCATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* * * *
22297204 CATCGTAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCATGGACCGT
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACATCA-TTCAATGTCATGAATCGC
* * *
22297265 TTCATATTTATCAAGTATTTCCTATTTTACGGTTTGATCCATTTTATATAAAAAGCCGTTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* * * *
22297330 TACAATTATATATATTTAATATATATACAACAACACGATCAAAATATAATACGAAAATGCAGAAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* * *
22297395 CTTCCACATGAACTTAACTAGAAAATGGCAACTAGAAAGTTTCGGGGACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
*
22297460 CTATATAATGATCCGAT-CTGCTCACTCGAGCTGTCAAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
*
22297524 CCATCGAATAAGTCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
*
22297589 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* *
22297654 CTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAGATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
*
22297719 CATCATAAACATGCTATCCAACAACATACCATTCCCATATCAGTTCAATGTCATGAATCGC
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACATCA-TTCAATGTCATGAATCGC
* ************************
22297780 TTCATATTTATCAAGTATTTCTTATTTTCCGATTTGATCCNNNNNNNNNNNNNNNNNNNNNNNNN
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCC-ATTTTATATAAAAAGCCATTAAAT
*****************************************************************
22297845 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
65 CTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTA
*****************************************************************
22297910 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
130 ACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATT
*****************************************************************
22297975 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
195 GCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCA
*******************************
22298040 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNA-TTTTCCTTTTTATAACCATAATCACTTTCCAT
260 ACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCAT
*
22298104 TCTTATCTAAACCATTTGTTAAATTCATACAGGTTCATTTACCGATTTCGTATCATTTCAAACTC
325 TCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTC
** * *
22298169 CCTAATTGTATACACACATTAGTTATTTTGAATAAGAATTCTCTATGCATTTTAAATTTGCAACA
390 TTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACA
* * *
22298234 TCATCGTAAACATGCTATCCAACAACATACCATTCCCACATCAGTTCAATGTCATGAACCGT
455 TCATCATAAACATGCTATCCAACAACATACCATTCCCACATCA-TTCAATGTCATGAATCGC
* * *
22298296 TTCATATTTATCAAGTATTTCCTATTTTACGGTTTGATCCATTTTATATAAAAAGCCGTTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* *
22298361 TACAATTATATATATTTAATATATATACAACAACACGATTAAAATATAATACGAAAATGCAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
*
22298426 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGAACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
* * *
22298491 CTATATAATGATCCGATACTACTCAGTCGAGCTGTCGAGAATCCAAAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
*
22298556 CCATCGAATAAATCTCTAATCACGATTCTCATTTTT-CTTTTTATAACCTTAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
* * *
22298620 GTTATCTAAACCATTTGATAAATTCATGCAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* * * *
22298685 TTAATTGTATACAAACTTTAGTTATTTTGAATAACAAGTCTCCATACATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* * *
22298750 CATCATAAACAAGCTATCCAACAACATAGCATTCCCACATCCATTCAATGTCATGAATCTC
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CATTCAATGTCATGAATCGC
* *
22298811 TTTATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* * *
22298876 TACAATTATATATATTTAATATATATACAAAAACACAACTAAAATATAACACGAAAATACAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
*
22298941 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGAGTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
*
22299006 CTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
* * * *
22299071 CCGTCGAATAAATCTCTAATCACGATTCCCATTTTCCCTGTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
** * * * *
22299136 CTTATCTAAACCATTTGAGAAATTCGTGCAGGTTCTTTTACCAATTTCGTGTCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* *
22299201 TTAATTGTATACACACATTAGTTATTTTGAATACCAAGTCTCTATACATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* * * *
22299266 CATCATATACATGCTATCCAGCAACATACCACTCCCACATCCATTCAATGTCATGAATCTC
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CATTCAATGTCATGAATCGC
* * * *
22299327 TTCATATTTATCAAGTATTTATTATTTTATGATTTGATCCAATTTATATAAAAGGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
*
22299392 TACAATTATATATATTTAATATCTATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* * * * *
22299457 CTTCCATATGAACTTTCCTAGAAAATAGCAACAAGAACGTTTCAGGGGCTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
* * * * *
22299522 CTATATAATGATCCGATACTGCTCACTGGAGCCGTCGAGAATCCATAAGTTCTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
*
22299587 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCTTTTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
*
22299652 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACTGATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* * *
22299717 TTAATTGTATACACACTTTAGTTATTTTGAATAACAATTCTCTGTACATTTTAAATCTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* * *
22299782 CATCATAAACATGCTAT-CATACAACATAGCATTCCCACATTAATTTAATGTCATGAATCGC
456 CATCATAAACATGCTATCCA-ACAACATACCATTCCCACA-TCATTCAATGTCATGAATCGC
* *
22299843 TTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATCTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* *
22299908 TACAATTATATATATTTAATATATATATAAAAAAACACAATTCAAATATAATACGAAAATGCAGT
66 TACAATTATATATATTT-A-ATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGT
*
22299973 AACTTCCATATGAACTTACCTTGAAAATGGCAACTAGAAAGTTT-ATGGGACTAATCATCACAGA
129 AACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCA-GGGACTAATCATCACAGA
**
22300037 TTGCTATATAATGATCCGATACTGCTCAGACGAGCTGTCGAGAATCCACAATTTGTGCTGGATCA
193 TTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATC-
* *
22300102 T-AACCATGGAATAAATCTCTAATCACGATTCCCATTTTTCC-TTTTATAACCATAATCACTTTC
257 TCAACCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTC
* * *
22300165 CATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAAATTCTTATCATTTCAAA
322 CATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAA
*
22300230 CTCTTTAATTGTATACACGCATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCA
387 CTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCA
* * * *
22300295 ACATCATCATATACATGCTATCCAACAACATACCATTCTCACATCTATTCAATGTTATGAATCTC
452 ACATCATCATAAACATGCTATCCAACAACATACCATTCCCACATC-ATTCAATGTCATGAATCGC
*
22300360 TTCATATTTATCAAGTATTTCTTATTTTATGATTTGATCCATTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
*
22300425 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAACATAATACGAAAATGCAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
*
22300490 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGAACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
*
22300555 CTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
* *
22300620 CCATCGAATAAATCTCTAATCACGATTCCCA-TTTTCCTTTTTATAACCTTAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
* * * * * * *
22300684 GTTATCGAAACCATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCGTACCATTTCAAATTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* *
22300749 TTAATTGTATACACACATTAGTTATTTTGAATAACAAGTCTCTATACATTTTAAATTTGCATCAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
*
22300814 CATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTG-
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CATTCAATGTCATGAATC-GC
* * * *
22300875 TTCATATTTATCAAGTAGTTCATATTTTACGATTTGATCCGTTTCATATAAAAAAGCCATTAAAT
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATAT-AAAAAGCCATTAAAT
* * *
22300940 CTACAATTATATATATTTAATAAATATACAAAAACACAATTCAAATATAATACGAAAATGAAGTA
65 CTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTA
* *
22301005 ACTTCCATATGAACTTACCTAGAAACTGGCAACTAGAAAGTTTCAGGGACTAATCATCACAAATT
130 ACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATT
*
22301070 GCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGTGCTGGATCTCA
195 GCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCA
* * * *
22301135 ACCATCGAATAAATCTCTAATCATGATTCCCTTTTTCTCCTTTTTATAACCGTAATCACTTTCCA
260 ACCATCGAATAAATCTCTAATCACGATTCTCATTTT-TCCTTTTTATAACCATAATCACTTTCCA
22301200 TTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACT
324 TTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACT
* **
22301265 CTTTAATTGTATACACACTTTAGTTATTTTGAATAACAAGCCTCTATACATTTTAAATTTGCAAC
389 CTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAAC
* * *
22301330 ATCATCATATACATGCTATCCAACAACATACCATTCTCACATCCATTCAATGTCATGAATCTC
454 ATCATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CATTCAATGTCATGAATCGC
*
22301393 TTCATATTTATCAAGTATTTCTTATTTTATGATTTGATCCATTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* * *
22301458 TACAACTATATATATTTAATATCTATACAAAAACAAAATTAAAATATAATACGAAAATGCAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* *
22301523 CTTCTATATGAACTTTCCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
* * * * * *
22301588 CTATATAATGATCCGATACTGCTCACTGGAGCCGTCGAGAATGCATAAGTTCTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
* *
22301653 CCATCGAATAAATCTCTAATCATGATTCTCATTTTTCTTTTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
* * *
22301718 CTTATCTAAACCATTTGTAAAATTCATGCAGGTTCTTTTACTGATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* *
22301783 TTAATTGTATACACACTTTAGTTATTTTGAATAACAATTCTCTGTACATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* * *
22301848 CATCATAAACATACTATCCAACAACATAGCATTCCCACATTAATTCAATGTCATGAATCGC
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACA-TCATTCAATGTCATGAATCGC
* *
22301909 TTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCTATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
*
22301974 TACAATTATATATATTTAATATATATACAAAAACACAATTCAAATATAATACGAAAATGCAGTAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
* * *
22302039 CTTCCGTATGAACTTACCTTGAAAATGGAAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
*
22302104 CTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
* * * * *
22302169 CCATCGAATAAATCTCTAATCACGAATCCCA-TTTCCCTTTTTATAACCTTAATCACTTTCCATA
261 CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
* * * * *
22302233 GTTATCTAAACGATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
* *
22302298 TTAATTGTATACACACATTAGTTATTTTGACTAACAAGTCTCTATACATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
* *
22302363 CATCATATACATGCTATCCAACAACATACCATTCTCACATCCATTC
456 CATCATAAACATGCTATCCAACAACATACCATTCCCACAT-CATTC
22302409 NNNNNNNNNN
Statistics
Matches: 5292, Mismatches: 858, Indels: 51
0.85 0.14 0.01
Matches are distributed among these distances:
514 8 0.00
515 1924 0.36
516 2401 0.45
517 513 0.10
518 445 0.08
519 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.34
Consensus pattern (515 bp):
TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCACAATTTGTGCTGGATCTCAA
CCATCGAATAAATCTCTAATCACGATTCTCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTATCATTTCAAACTCT
TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
CATCATAAACATGCTATCCAACAACATACCATTCCCACATCATTCAATGTCATGAATCGC
Found at i:22304413 original size:517 final size:515
Alignment explanation
Indices: 22303442--22304607 Score: 2143
Period size: 517 Copynumber: 2.3 Consensus size: 515
22303432 NNNNNNNNNN
* * * *
22303442 AATGTCATGAATCTCTTCATATTTATAAAATATTTCTTATTTTATGATTTGATCCATCTTATATA
1 AATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATCTTATATA
* *
22303507 AAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAACATAAT
66 AAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTCAAATATAAT
22303572 ACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTCGAAAGTTTCAGGGACT
131 ACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTCGAAAGTTTCAGGGACT
*
22303637 AATTATCACAGATTGCTATATAATGATCCAATACTGCTCAGTCGAGCTGTCGAGAATCCACAATT
196 AATCATCACAGATTGCTATATAATGATCCAATACTGCTCAGTCGAGCTGTCGAGAATCCACAATT
*
22303702 TGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGAATCCCATTTTCCTTTTTATAACCTT
261 TGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGAATCCCATTTCCCTTTTTATAACCTT
22303767 AATCACTTTCCATAGTTATCTAAACGATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCGTA
326 AATCACTTTCCATAGTTATCTAAACGATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCGTA
22303832 TCATTTCAAACTCTTTAATTGTATATACACATTAGTTATTTTGAATAACAAGTCTCTATACATTT
391 TCATTTCAAACTCTTTAATTGTATATACACATTAGTTATTTTGAATAACAAGTCTCTATACATTT
*
22303897 TAAATTTGCAATATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTC
456 TAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTC
*
22303957 AATGTCATGATTCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATCTTATATA
1 AATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATCTTATATA
*
22304022 AAAAGCCATTAAATCTACAATTATACATATTTAATATATATATACAAAAACACAATTCAAATATA
66 AAAAGCCATTAAATCTACAATTATATATATTT-A-ATATATATACAAAAACACAATTCAAATATA
* * *
22304087 ATACGGAAATGGAGTAACTTCCATATGAACTTACCTAGAAAATGGCAAGTCGAAAGTTTCAGGGA
129 ATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTCGAAAGTTTCAGGGA
*
22304152 CTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGAGAATCCACAA
194 CTAATCATCACAGATTGCTATATAATGATCCAATACTGCTCAGTCGAGCTGTCGAGAATCCACAA
22304217 TTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGAATCCCATTTCCCTTTTTATAACC
259 TTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGAATCCCATTTCCCTTTTTATAACC
22304282 TTAATCACTTTCCATAGTTATCTAAACGATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCG
324 TTAATCACTTTCCATAGTTATCTAAACGATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCG
22304347 TATCATTTCAAACTCTTTAATTGTATATACACATTAGTTATTTTGAATAACAAGTCTCTATACAT
389 TATCATTTCAAACTCTTTAATTGTATATACACATTAGTTATTTTGAATAACAAGTCTCTATACAT
22304412 TTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTC
454 TTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTC
* *
22304474 AATGTCATGAATCTCTTCATATTTTATCAAGTAGTTCTTATATTACGATTTGATCCATTTTATAT
1 AATGTCATGAATCTCTTCATA-TTTATCAAGTAGTTCTTATTTTACGATTTGATCCATCTTATAT
*
22304539 AAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTCAAGTATAA
65 AAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTCAAATATAA
22304604 TACG
130 TACG
22304608 NNNNNNNNNN
Statistics
Matches: 628, Mismatches: 20, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
515 91 0.14
516 35 0.06
517 429 0.68
518 73 0.12
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (515 bp):
AATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATCCATCTTATATA
AAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTCAAATATAAT
ACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTCGAAAGTTTCAGGGACT
AATCATCACAGATTGCTATATAATGATCCAATACTGCTCAGTCGAGCTGTCGAGAATCCACAATT
TGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGAATCCCATTTCCCTTTTTATAACCTT
AATCACTTTCCATAGTTATCTAAACGATTTGATAAATTCATGCAGGTTCTTTTACCAATTTCGTA
TCATTTCAAACTCTTTAATTGTATATACACATTAGTTATTTTGAATAACAAGTCTCTATACATTT
TAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTC
Found at i:22326371 original size:515 final size:515
Alignment explanation
Indices: 22325017--22327378 Score: 2869
Period size: 515 Copynumber: 4.6 Consensus size: 515
22325007 NNNNNNNNNT
*
22325017 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGAAACTA
1 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
* * * *
22325082 GAAAGTTTCAGGGACTAATCATCACCGATTGCTATATAATGATGCGATACCGCTCACTCGAGCTG
66 GAAAGTTTCAGGGACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
* *
22325147 TCGAGAATCCACAATTTGTGCTGGATCTTAACCATCGAATAAATCTCTAATCACGATTCTCATTT
131 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCA-TT
* * * * *
22325212 TTCTTTTTTATAACCATAATCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACCGGTT
195 TTCCTTTTTATAACCTTAATCACTTTCCATTCTTATCTAAACGATTTGATAAATTCATACAGGTT
* *
22325277 CTTTTACCGATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAA
260 CTTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGACTAA
* * *
22325342 CAATTCTCTATACATTTTAAATTTGCAACATCATCATATATATGCTAGCCAACAACATACCATTC
325 CAAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTC
* * * * *
22325407 TCACATCCATTCAATGTCATGAATC-CTTTCATATTTATAAAGTATTTCTTATTTTATGGTTTGA
390 CCACATCCATTCAATGTCATGAATCTC-TTCATATTTATCAAGTAGTTCTTATTTTACGATTTGA
* *
22325471 ACCATTTTATATAAAAATCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
454 TCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
* *
22325533 ACAATTAAAACATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
1 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
*
22325598 GAAAGTTTCAGGAACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
66 GAAAGTTTCAGGGACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
*
22325663 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTGTAATCACGATTCCCATTT
131 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCATTT
*****************************************************************
22325728 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
196 TCCTTTTTATAACCTTAATCACTTTCCATTCTTATCTAAACGATTTGATAAATTCATACAGGTTC
*********************************************************
22325793 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGACTAAC
261 TTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGACTAAC
22325858 AAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCC
326 AAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCC
22325923 CACATCCATTCAATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATC
391 CACATCCATTCAATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATC
22325988 CATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
456 CATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
* * *
22326048 ACAATTAAAACATAATACGAAAATGCAGTAACTTCCAAATGAACTTACCTAGAAAATGGCAACTA
1 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
*
22326113 GAAAGTTTCAGGAACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
66 GAAAGTTTCAGGGACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
*
22326178 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATCAATCTCTAATCACGATTCCCATTT
131 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCATTT
* * * *
22326243 TCCTGTTTATAACCTTAGTCACTTTCCATTGTTATCTAAACGATTTGATAAATTCATGCAGGTTC
196 TCCTTTTTATAACCTTAATCACTTTCCATTCTTATCTAAACGATTTGATAAATTCATACAGGTTC
*
22326308 TTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTACTTATTTTGACTAAC
261 TTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGACTAAC
22326373 AAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCC
326 AAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCC
22326438 CACATCCATTCAATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATC
391 CACATCCATTCAATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATC
22326503 CATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
456 CATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
*
22326563 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAACTGGCAACTA
1 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
* * *
22326628 GAAAGTTTCAGGGACTAATCGTCACAGATTGCTATATAATGATGCGATACTGCTCACTCGAGCTG
66 GAAAGTTTCAGGGACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
* *
22326693 TCGAGAATCCATAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCTTTT
131 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCC-ATT
* * *
22326758 TTCCTTTTTATAACCGTAATCACTTTCAATTCTTATCTAAA-GCATTTGTTAAATTCATACAGGT
195 TTCCTTTTTATAACCTTAATCACTTTCCATTCTTATCTAAACG-ATTTGATAAATTCATACAGGT
* * *
22326822 TCTTTTACCGATTTCGTA-CTGTTTCAAACTCTTTAATTGTATACACACTTTAGTTATTTTGAAC
259 TCTTTTACCAATTTCGTATC-ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTG-AC
* * * * * *
22326886 -AAGAAGTCTCTATACATTTTCAATTTGCAACGTCATCATAAACATGCTATCCAACAACGTAGCA
322 TAACAAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCA
** ** *
22326950 TTCATACATGAATTCAATGTCATGAATCGCTTCATATTTATCAAGTAGTTCTTATTTTACGATTT
387 TTCCCACATCCATTCAATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTT
* *
22327015 GATCCATCTTATATAAAAAGCTATTAAATCTACAATTATATATATTTAATATATATATACAAAAA
452 GATCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTT-A-ATATATATACAAAAA
22327080 C
515 C
* *
22327081 ACAATTCAAATATAATAGGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGAAACTA
1 ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
*
22327146 GAAAGTTTCAGGGACTAATCATCACCGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
66 GAAAGTTTCAGGGACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
* * *
22327211 TCGAGAATCCACAATTTATACTGGATCTCAACCATCGAATAAATCTCTAATCACGACTCCCATTT
131 TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCATTT
* * * *
22327276 TCCTTTTCATAACCTTAATCACTTTCCATTGTTATCTAAACGATTTGATAAATTCGTGCAGGTTC
196 TCCTTTTTATAACCTTAATCACTTTCCATTCTTATCTAAACGATTTGATAAATTCATACAGGTTC
22327341 TTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGT
261 TTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGT
22327379 NNNNNNNNNN
Statistics
Matches: 1512, Mismatches: 325, Indels: 17
0.82 0.18 0.01
Matches are distributed among these distances:
515 761 0.50
516 457 0.30
517 96 0.06
518 198 0.13
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.33
Consensus pattern (515 bp):
ACAATTCAAATATAATACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTA
GAAAGTTTCAGGGACTAATCATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTG
TCGAGAATCCACAATTTGTGCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCATTT
TCCTTTTTATAACCTTAATCACTTTCCATTCTTATCTAAACGATTTGATAAATTCATACAGGTTC
TTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGACTAAC
AAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCC
CACATCCATTCAATGTCATGAATCTCTTCATATTTATCAAGTAGTTCTTATTTTACGATTTGATC
CATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAAC
Found at i:22328142 original size:201 final size:202
Alignment explanation
Indices: 22327788--22328188 Score: 619
Period size: 201 Copynumber: 2.0 Consensus size: 202
22327778 ACGATTCCCA
* * *
22327788 TTTTCCTTATTTATAACGTTACTCACTCTCCATTGTTATCTAAGCCATTTGATAAATTCATGCAG
1 TTTTCCTTATTTATAACGTTAATCACTCTCCATTCTTATCTAAGCCATTTGATAAATTCATACAG
* *
22327853 GTTCTTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAC
66 GTTCTTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTACTTTGAA
* * *
22327918 TAACAAGTCTCTATACATTTTAAATTTGCAACATCATCATATACATGTTATCCAACAACATACCA
131 TAACAAGTCTCTATACATTTTAAATGTGCAACATCATCATAAACATGCTATCCAACAACATACCA
22327983 TTCCCTT
196 TTCCCTT
* * *
22327990 TTTTCCTT-TTTATAACCG-TAATCACTTTCCATTCTTATGTAAAG-CATTTGTTAAATTCATAC
1 TTTTCCTTATTTATAA-CGTTAATCACTCTCCATTCTTATCT-AAGCCATTTGATAAATTCATAC
** *
22328052 AGGTTCTTTTACTGATTTCGTATCATTTCAAACTCTTTAATTGTATACACACTTTAGTTACTTTG
64 AGGTTCTTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTACTTTG
* *
22328117 AATAAGAAGTCTCTATACATTTTAAATGTGCAACATCATCATAAACATGCTATCCAACAACATAG
129 AATAACAAGTCTCTATACATTTTAAATGTGCAACATCATCATAAACATGCTATCCAACAACATAC
22328182 CATTCCC
194 CATTCCC
22328189 ACATGAATTC
Statistics
Matches: 181, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
201 168 0.93
202 13 0.07
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (202 bp):
TTTTCCTTATTTATAACGTTAATCACTCTCCATTCTTATCTAAGCCATTTGATAAATTCATACAG
GTTCTTTTACCAATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTACTTTGAA
TAACAAGTCTCTATACATTTTAAATGTGCAACATCATCATAAACATGCTATCCAACAACATACCA
TTCCCTT
Found at i:22343857 original size:50 final size:50
Alignment explanation
Indices: 22343796--22344269 Score: 237
Period size: 50 Copynumber: 9.5 Consensus size: 50
22343786 TAAGGAGGTA
*
22343796 AGATCTGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* * * ** * * * * * ***
22343846 AGATTCGCCGTTGTGACTTCAAT-CTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGGCTTCAATCCT-TTTAATTGCGCTGTCGGGGAAACC
** *
22343896 AGATCTACCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGAGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* * * ** * * * * * **
22343946 AGA-CCTGCTGTTGTGACTTCAAT-CTGCTCCACTGCACCGCCAGGGAAATA
1 AGATCC-GCCGTTGTGGCTTCAATCCT-TTTAATTGCGCTGTCGGGGAAACC
* * *
22343996 AGATCCGTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGTGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* * ** * * * * * *
22344046 AGATCCGCCGTTGTGACTTCAAT-CTACTCCACTGCACCG-CTAGGGAAGCA
1 AGATCCGCCGTTGTGGCTTCAATCCT-TTTAATTGCGCTGTC-GGGGAAACC
* * *
22344096 AAATCCTCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* * ** * * * * ***
22344146 AGA-CCTGCCGTTATGACTTCAAT-CTGTTCCACTGCACCG-CTAGGGAAGTA
1 AGATCC-GCCGTTGTGGCTTCAATCCT-TTTAATTGCGCTGTC-GGGGAAACC
* * * **
22344196 AGATACGCGGTTGTGGCTTCAATCTTTTTAATTATGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* *
22344246 AGA-CCTGGCGTTGTGACTTCAATC
1 AGATCC-GCCGTTGTGGCTTCAATC
22344270 TGCTCCACTA
Statistics
Matches: 287, Mismatches: 120, Indels: 34
0.65 0.27 0.08
Matches are distributed among these distances:
49 12 0.04
50 265 0.92
51 10 0.03
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
Found at i:22343907 original size:100 final size:100
Alignment explanation
Indices: 22343762--22344330 Score: 815
Period size: 100 Copynumber: 5.7 Consensus size: 100
22343752 GCTGTCGTAG
* * * * *
22343762 CTTCAATCTG-TTCAGCTGCACCGCTAAGGAGGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTA
1 CTTCAATCTGCTCCA-CTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTA
*
22343826 ATTGCGCTGTCGGGGAAACCAGA-TTCGCCGTTGTGA
65 ATTGCGCTGTCGGGGAAACCAGACCT-GCCGTTGTGA
* *
22343862 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTACCGTTGTGGCTTCAATCCTTTTAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAA
* *
22343927 TTGCGCTGTCGAGGAAACCAGACCTGCTGTTGTGA
66 TTGCGCTGTCGGGGAAACCAGACCTGCCGTTGTGA
* * *
22343962 CTTCAATCTGCTCCACTGCACCGCCAGGGAAATAAGATCCGTCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAA
*
22344027 TTGCGCTGTCGTGGAAACCAGATCC-GCCGTTGTGA
66 TTGCGCTGTCGGGGAAACCAGA-CCTGCCGTTGTGA
* * * *
22344062 CTTCAATCTACTCCACTGCACCGCTAGGGAAGCAAAATCCT-CCGTTGTGGCTTCAATCTTTTTA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGAT-CTGCCGTTGTGGCTTCAATCTTTTTA
*
22344126 ATTGCGCTGTCGGGGAAACCAGACCTGCCGTTATGA
65 ATTGCGCTGTCGGGGAAACCAGACCTGCCGTTGTGA
* * *
22344162 CTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATAC-GCGGTTGTGGCTTCAATCTTTTTA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGAT-CTGCCGTTGTGGCTTCAATCTTTTTA
** *
22344226 ATTATGCTGTCGGGGAAACCAGACCTGGCGTTGTGA
65 ATTGCGCTGTCGGGGAAACCAGACCTGCCGTTGTGA
* *
22344262 CTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAA
22344327 TTGC
66 TTGC
22344331 TACGTCAAGA
Statistics
Matches: 421, Mismatches: 41, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
99 3 0.01
100 411 0.98
101 7 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.30
Consensus pattern (100 bp):
CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAA
TTGCGCTGTCGGGGAAACCAGACCTGCCGTTGTGA
Found at i:22344292 original size:50 final size:50
Alignment explanation
Indices: 22343852--22344320 Score: 223
Period size: 50 Copynumber: 9.4 Consensus size: 50
22343842 AACCAGATTC
* ** *
22343852 GCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCT
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGACCT
* * ** * * * * *
22343902 ACCGTTGTGGCTTCAATCCT-TTTAATTGCGCTGTC-GAGGAAACCAGACCT
1 GCCGTTGTGACTTCAAT-CTGTTCCACTGCACCGCCAG-GGAAACAAGACCT
* * *
22343952 GCTGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAATAAGATCC-
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGA-CCT
* * * ** * * * * *
22344002 GTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC-GTGGAAACCAGATCC-
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAG-GGAAACAAGA-CCT
** * * *
22344052 GCCGTTGTGACTTCAATCTACTCCACTGCACCGCTAGGGAAGCAAAATCCT
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGA-CCT
* * ** * * * * * *
22344103 -CCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGACCT
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGACCT
* * ** *
22344152 GCCGTTATGACTTCAATCTGTTCCACTGCACCGCTAGGGAAGTAAGATAC-
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGA-CCT
* * * ** * *** * * * *
22344202 GCGGTTGTGGCTTCAATCTTTTTAATTATGCTGTCGGGGAAACCAGACCT
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGACCT
* * * ** *
22344252 GGCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAGATCT
1 GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGACCT
* *
22344302 GTCGTTGTGGCTTCAATCT
1 GCCGTTGTGACTTCAATCT
22344321 TTTTAATTGC
Statistics
Matches: 290, Mismatches: 118, Indels: 22
0.67 0.27 0.05
Matches are distributed among these distances:
49 8 0.03
50 275 0.95
51 7 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
GCCGTTGTGACTTCAATCTGTTCCACTGCACCGCCAGGGAAACAAGACCT
Found at i:22345716 original size:13 final size:14
Alignment explanation
Indices: 22345678--22345724 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
22345668 GCCTATCCAA
22345678 TTTTATTTTTTCCATT
1 TTTTA-TTTTT-CATT
*
22345694 TTTCATTTTTCATT
1 TTTTATTTTTCATT
22345708 TTTTA-TTTTCATT
1 TTTTATTTTTCATT
22345721 TTTT
1 TTTT
22345725 CACATCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 8 0.28
15 5 0.17
16 4 0.14
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTCATT
Found at i:22345726 original size:8 final size:7
Alignment explanation
Indices: 22345684--22345723 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
22345674 CCAATTTTAT
22345684 TTTTTCCA
1 TTTTT-CA
22345692 TTTTTCA
1 TTTTTCA
22345699 TTTTTCA
1 TTTTTCA
*
22345706 TTTTTTA
1 TTTTTCA
22345713 -TTTTCA
1 TTTTTCA
22345719 TTTTT
1 TTTTT
22345724 TCACATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 5 0.17
7 19 0.66
8 5 0.17
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:22346230 original size:1 final size:1
Alignment explanation
Indices: 22346224--22346316 Score: 60
Period size: 1 Copynumber: 93.0 Consensus size: 1
22346214 CCCAGCGGGG
* * * * * * * * * * * *
22346224 TTTTTTTTCTTTTTTCTGTTTTTTCTTCTTTTTTCTATTTTTTCTTCTTTTTTGTTTTGTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
22346289 TGTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
22346317 GGATTGAATC
Statistics
Matches: 64, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.01, C:0.08, G:0.06, T:0.85
Consensus pattern (1 bp):
T
Found at i:22346246 original size:10 final size:9
Alignment explanation
Indices: 22346224--22346316 Score: 70
Period size: 9 Copynumber: 10.6 Consensus size: 9
22346214 CCCAGCGGGG
22346224 TTTTTTTTC
1 TTTTTTTTC
22346233 --TTTTTTC
1 TTTTTTTTC
*
22346240 TGTTTTTTC
1 TTTTTTTTC
22346249 TTCTTTTTTC
1 TT-TTTTTTC
*
22346259 TATTTTTTC
1 TTTTTTTTC
*
22346268 TTCTTTTTTG
1 TT-TTTTTTC
22346278 TTTTGTTTT-
1 TTTT-TTTTC
* * *
22346287 TGTGTTTTG
1 TTTTTTTTC
22346296 TTTTTTTT-
1 TTTTTTTTC
22346304 TTTTTTTT-
1 TTTTTTTTC
22346312 TTTTT
1 TTTTT
22346317 GGATTGAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.10
8 17 0.24
9 26 0.37
10 20 0.29
ACGTcount: A:0.01, C:0.08, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:22346252 original size:19 final size:19
Alignment explanation
Indices: 22346223--22346276 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
22346213 CCCCAGCGGG
22346223 GTTTTTT-TTCTTTTTTCT
1 GTTTTTTCTTCTTTTTTCT
22346241 GTTTTTTCTTCTTTTTTCT
1 GTTTTTTCTTCTTTTTTCT
*
22346260 ATTTTTTCTTCTTTTTT
1 GTTTTTTCTTCTTTTTT
22346277 GTTTTGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 7 0.21
19 27 0.79
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.81
Consensus pattern (19 bp):
GTTTTTTCTTCTTTTTTCT
Found at i:22364318 original size:52 final size:52
Alignment explanation
Indices: 22364247--22364516 Score: 426
Period size: 52 Copynumber: 5.3 Consensus size: 52
22364237 ATCAAGTGAC
22364247 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
22364299 AAAGTGATAATTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAGGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
22364351 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
22364403 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
22364449 AAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATTAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
22364501 AAAGTGATAAGTGATA
1 AAAGTGATAAGTGATA
22364517 AGTGATAGCT
Statistics
Matches: 200, Mismatches: 12, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
46 42 0.21
52 158 0.79
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:22364363 original size:59 final size:57
Alignment explanation
Indices: 22364300--22364549 Score: 245
Period size: 52 Copynumber: 4.7 Consensus size: 57
22364290 GACAAGTGGA
*
22364300 AAGTGATAATTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAGGTGGAAAGTGAT
1 AAGTGAT-A-TGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGAT
*
22364359 AA--G---TGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGTGGAAAGTGAT
1 AAGTGATATGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGAT
* *
22364411 AA--G---TGATAGCTTCGGCTATACTTATCTGATCAAGAGAC------AAAGTGAT
1 AAGTGATATGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGAT
* *
22364457 AAGTGATA-G-T---TTCGGCTACACTTATCTGATTAAGTGACAAGTGAAAAGTGAT
1 AAGTGATATGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGAT
**
22364509 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 AAGTGAT-A-TGATAGCTTCGGCTACACTTATCTGATCAAG
22364550 AAACAAAGTG
Statistics
Matches: 162, Mismatches: 11, Indels: 36
0.78 0.05 0.17
Matches are distributed among these distances:
46 35 0.22
48 1 0.01
49 1 0.01
50 1 0.01
52 97 0.60
53 1 0.01
55 1 0.01
56 1 0.01
57 1 0.01
59 23 0.14
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (57 bp):
AAGTGATATGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGAT
Found at i:22364471 original size:46 final size:46
Alignment explanation
Indices: 22364403--22364509 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
22364393 TGACAAGTGG
*
22364403 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
* * *
22364449 AAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATTAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
22364495 -AAGTGAAAAGTGATA
1 AAAGTGATAAGTGATA
22364510 AGTGATAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 14 0.25
46 42 0.75
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
Found at i:22364500 original size:7 final size:7
Alignment explanation
Indices: 22364487--22364523 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22364477 CTTATCTGAT
22364487 TAAGTGA
1 TAAGTGA
*
22364494 CAAGTGA
1 TAAGTGA
*
22364501 AAAGTGA
1 TAAGTGA
22364508 TAAGTGA
1 TAAGTGA
22364515 TAAGTGA
1 TAAGTGA
22364522 TA
1 TA
22364524 GCTTTAGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.27, T:0.24
Consensus pattern (7 bp):
TAAGTGA
Found at i:22364505 original size:98 final size:98
Alignment explanation
Indices: 22364233--22364566 Score: 470
Period size: 104 Copynumber: 3.3 Consensus size: 98
22364223 TTTGAGTACT
* *
22364233 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGTG
*
22364298 GAAAGTGATAATTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
22364331 TCTGATCAAGTGACAGGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGA
*
22364396 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
22364435 TCTGATCAAGAGACAAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATTAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGT-
**
22364500 AAAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
65 ----G-GA-AAGTGATAAGTGATAGCTTCGGCTACACTTA
*
22364540 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
22364567 GCTACACTTA
Statistics
Matches: 214, Mismatches: 9, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
98 63 0.29
103 1 0.00
104 96 0.45
105 54 0.25
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGTGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:22364574 original size:37 final size:37
Alignment explanation
Indices: 22364530--22364638 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
22364520 GATAGCTTTA
22364530 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
22364567 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
22364604 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
22364639 ATCATACGTA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
35 12 0.17
36 4 0.06
37 54 0.77
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:22372184 original size:2 final size:2
Alignment explanation
Indices: 22372177--22372207 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22372167 ATACTTAAAT
22372177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22372208 TATGGTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22375574 original size:45 final size:45
Alignment explanation
Indices: 22375475--22375636 Score: 220
Period size: 45 Copynumber: 3.6 Consensus size: 45
22375465 TCTCAATCTA
* * * *
22375475 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TTTATTTAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
* * *
22375519 CCCCATTGCAATTTCAAGGG-GATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGACTTGCTTTCTTGAGTCTG
* *
22375564 TTCCACTGCAACTTCAGGAAGATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
22375609 CTCCACTGCAACTTCAGGGAGATAAGAC
1 CTCCACTGCAACTTCAGGGAGATAAGAC
22375637 CCGATGTGAT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 25 0.25
45 76 0.75
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTG
Found at i:22376306 original size:50 final size:50
Alignment explanation
Indices: 22376252--22376427 Score: 156
Period size: 50 Copynumber: 3.5 Consensus size: 50
22376242 CCAGAGAAGT
* *
22376252 AAGATTCGTCGTTGTGGCTTCAATCTATTTAATTGTAATGTCAGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTTAATTGTAATGTCAGGGAAAC
* * * ** * * ** * * **
22376302 AAGA-TCTGCCGTCATCGCTTCAATCTGTTCCACTATACCGCCAGGGGAGT
1 AAGATTC-GCCGTCGTGGCTTCAATCTATTTAATTGTAATGTCAGGGAAAC
* * *
22376352 AAGATTCGCCGTTGTGGCTTCAATCTATTTAATTGGAATATCAGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTTAATTGTAATGTCAGGGAAAC
* *
22376402 AAGATCCACCGTCGTGGCTTCAATCT
1 AAGATTCGCCGTCGTGGCTTCAATCT
22376428 GTTCTACTAC
Statistics
Matches: 90, Mismatches: 34, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
49 2 0.02
50 86 0.96
51 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCGTCGTGGCTTCAATCTATTTAATTGTAATGTCAGGGAAAC
Found at i:22376366 original size:100 final size:100
Alignment explanation
Indices: 22376218--22376480 Score: 391
Period size: 100 Copynumber: 2.6 Consensus size: 100
22376208 CGCCGTCGTG
* * * * * * *
22376218 GCTTCAATCTGCTCCGCTACAACACCAGAGAAGTAAGATTCGTCGTTGTGGCTTCAATCTATTTA
1 GCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTA
* * **
22376283 ATTGTAATGTCAGGGAAACAAGATCTGCCGTCATC
66 ATTGGAATATCAGGGAAACAAGATCCACCGTCATC
*
22376318 GCTTCAATCTGTTCCACTATACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTA
1 GCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTA
* *
22376383 ATTGGAATATCAGGGAAACAAGATCCACCGTCGTG
66 ATTGGAATATCAGGGAAACAAGATCCACCGTCATC
*
22376418 GCTTCAATCTGTTCTACTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 GCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
22376481 CCACTGTAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 147 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (100 bp):
GCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTA
ATTGGAATATCAGGGAAACAAGATCCACCGTCATC
Found at i:22376447 original size:50 final size:50
Alignment explanation
Indices: 22376293--22376477 Score: 138
Period size: 50 Copynumber: 3.7 Consensus size: 50
22376283 ATTGTAATGT
* * * * *
22376293 CAGGGAAACAAGATCTGCCGTCATCGCTTCAATCTGTTCCACTATACCGC
1 CAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTGTTCTACTACACCGC
* ** * * * * ** ****
22376343 CAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATT-TAATTGGAATAT
1 CAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTGTTCT-ACTACACCGC
*
22376393 CAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGC
1 CAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTGTTCTACTACACCGC
* ** * *
22376443 CAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCT
1 CAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCT
22376478 ATTCCACTGT
Statistics
Matches: 96, Mismatches: 37, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
50 95 0.99
51 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (50 bp):
CAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTGTTCTACTACACCGC
Found at i:22376594 original size:367 final size:367
Alignment explanation
Indices: 22375902--22376747 Score: 1260
Period size: 367 Copynumber: 2.3 Consensus size: 367
22375892 GATTCGCCGT
* * * * * * * *
22375902 CTTCAACCTGTTTAACTGCAATGTCAGGGAAACAAAATTTTCCGTTGTAGCTTCGATCTGTTCCA
1 CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTACCGTCGTAGCTTCAATCTGTTCCA
* * * ** * * * *
22375967 CTACACCGCCATGGAAATAAGATTTACCATTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGA
66 CTACACCGCCAGGGGAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAATTGCAATATCAGGGA
* *
22376032 AACAAGATCCGCTGTCGTGGCTTCAATCTGTTCCACTACACAGCCAGGGGAGTAAGATTCGCCGT
131 AACAAGATCCACCGTCGTGGCTTCAATCTGTTCCACTACACAGCCAGGGGAGTAAGATTCGCCGT
* *
22376097 TGTGGCTTCAATCTATTCCACTGAAATGCTAAAGAGATAGGATTCGTTACCCACAGCTTCAATCC
196 TGTGGCTTCAATCTATTCCACTGAAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTCAATCC
* * *
22376162 GCACCACTTTAGCTAATCCAAGCCTTCATGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATC
261 GCACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCCGTCGTGACTTCAATC
*
22376227 TGCTCCGCTACAACACCAGAGAAGTAAGATTCGTCGTTGTGG
326 TGCTCCGCTACAACACCAGAGAAGTAAGATTCGCCGTTGTGG
* * * *
22376269 CTTCAATCTATTTAATTGTAATGTCAGGGAAACAAGATCTGCCGTCATCGCTTCAATCTGTTCCA
1 CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTACCGTCGTAGCTTCAATCTGTTCCA
* * *
22376334 CTATACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAATTGGAATATCAGGGA
66 CTACACCGCCAGGGGAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAATTGCAATATCAGGGA
* *
22376399 AACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCCAGGGGAGTAAGATTCGCCGT
131 AACAAGATCCACCGTCGTGGCTTCAATCTGTTCCACTACACAGCCAGGGGAGTAAGATTCGCCGT
* * * *
22376464 TGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGTTAGGATTTGCTACCCACAGCTTTAATCC
196 TGTGGCTTCAATCTATTCCACTGAAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTCAATCC
*
22376529 GCACCACTTCAGCTAATCCAAGCCTTCACGCTAGGGAGATAAGATTCGCCGTCGTGACTTCAATC
261 GCACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCCGTCGTGACTTCAATC
** * *
22376594 TGCTCCGCTACAATGCCAGGGAAGTAAGATTTGCCGTTGTGG
326 TGCTCCGCTACAACACCAGAGAAGTAAGATTCGCCGTTGTGG
* * * * *
22376636 TTTCAATCTATTTAATTGCAATATCAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTA
1 CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTACCGTCGTAGCTTCAATCTGTTCCA
22376701 CTACACCGCCAGGGGAGTAAGATTCGCCATTGTGGCTTCAATCTATT
66 CTACACCGCCAGGGGAGTAAGATTCGCCATTGTGGCTTCAATCTATT
22376748 CCACTGTAAT
Statistics
Matches: 427, Mismatches: 52, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
367 427 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (367 bp):
CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTACCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGGAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAATTGCAATATCAGGGA
AACAAGATCCACCGTCGTGGCTTCAATCTGTTCCACTACACAGCCAGGGGAGTAAGATTCGCCGT
TGTGGCTTCAATCTATTCCACTGAAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTCAATCC
GCACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCCGTCGTGACTTCAATC
TGCTCCGCTACAACACCAGAGAAGTAAGATTCGCCGTTGTGG
Found at i:22376633 original size:267 final size:267
Alignment explanation
Indices: 22376319--22376914 Score: 1014
Period size: 267 Copynumber: 2.2 Consensus size: 267
22376309 GCCGTCATCG
* * * * * *
22376319 CTTCAATCTGTTCCACTATACCGCCAGGGGAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAA
1 CTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAA
*
22376384 TTGGAATATCAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCCAGGGG
66 TTGCAATATCAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCCAGGGG
* * *
22376449 AGTAAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGTTAGGATTTGCTAC
131 AGTAAGATTCGCCATTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCGCTAC
* * *
22376514 CCACAGCTTTAATCCGCACCACTTCAGCTAATCCAAGCCTTCACGCTAGGGAGATAAGATTCGCC
196 CCACAGCTTCAATCCACACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCC
22376579 G-TCGTGA
261 GCT-GTGA
* *
22376586 CTTCAATCTGCTCCGCTACAATGCCAGGGAAGTAAGATTTGCCGTTGTGGTTTCAATCTATTTAA
1 CTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAA
22376651 TTGCAATATCAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCCAGGGG
66 TTGCAATATCAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCCAGGGG
22376716 AGTAAGATTCGCCATTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCGCTAC
131 AGTAAGATTCGCCATTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCGCTAC
22376781 CCACAGCTTCAATCCACACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCC
196 CCACAGCTTCAATCCACACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCC
*
22376846 GCTGTGG
261 GCTGTGA
* *
22376853 CTTTAATCTGCTCCGCTAGAACGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATT
1 CTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATT
22376915 CCATTACAAT
Statistics
Matches: 308, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
267 307 1.00
268 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (267 bp):
CTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTATTTAA
TTGCAATATCAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCCAGGGG
AGTAAGATTCGCCATTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCGCTAC
CCACAGCTTCAATCCACACCACTTCAGCTAATCCAAGCCTTCACGCCAGGGAGATAAGATTCGCC
GCTGTGA
Found at i:22377039 original size:88 final size:88
Alignment explanation
Indices: 22376940--22377118 Score: 241
Period size: 88 Copynumber: 2.0 Consensus size: 88
22376930 GGCGATAAGA
* * * * * * *
22376940 CTGGTGTCTTCGATCTGCTTCATTGCCAGTAGAGGAAGGCAAGGTCTGCCATCTTCAACCTACTC
1 CTGGTATCTTCGATCTACTTCATTGCCAATACAGAAAGACAAGATCTGCCATCTTCAACCTACTC
*
22377005 CACTGTTGCTCAGGGAGACAAGG
66 CACTGCTGCTCAGGGAGACAAGG
* * * *
22377028 CTGGTATCTTCGATCTACTTCATTGCCAATACAGAAAGACGAGATCTGCTATTTTTAACCTACTC
1 CTGGTATCTTCGATCTACTTCATTGCCAATACAGAAAGACAAGATCTGCCATCTTCAACCTACTC
*
22377093 CACTGCTGCTCAGGGAGATAAGG
66 CACTGCTGCTCAGGGAGACAAGG
22377116 CTG
1 CTG
22377119 AGGACTTCGA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (88 bp):
CTGGTATCTTCGATCTACTTCATTGCCAATACAGAAAGACAAGATCTGCCATCTTCAACCTACTC
CACTGCTGCTCAGGGAGACAAGG
Found at i:22394167 original size:34 final size:36
Alignment explanation
Indices: 22394101--22394168 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
22394091 ATATATATTT
* * *
22394101 AAATCACAATTAAAATTTCACGTGTATAATTACATC
1 AAATCACAATCAAAATTTCACGTATACAATTACATC
*
22394137 AAATCA-AATCAAAA-TTCATGTATACAATTACA
1 AAATCACAATCAAAATTTCACGTATACAATTACA
22394169 CATTAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 15 0.54
35 7 0.25
36 6 0.21
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (36 bp):
AAATCACAATCAAAATTTCACGTATACAATTACATC
Found at i:22397261 original size:41 final size:42
Alignment explanation
Indices: 22397178--22397267 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
22397168 TCGGATTTCC
* *
22397178 ATATTATTTTTGGATTTTGAAATTTTGAACGTTATTTAGATA
1 ATATTATTTTTGGATTTAGAAATTTTGAACGTTAATTAGATA
* * *
22397220 ATATTATTTTTGGGA-TTAG-ATTTTTGAACTTTAATTGGATA
1 ATATTATTTTT-GGATTTAGAAATTTTGAACGTTAATTAGATA
*
22397261 AAATTAT
1 ATATTAT
22397268 CTTTCTTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 24 0.59
42 14 0.34
43 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.51
Consensus pattern (42 bp):
ATATTATTTTTGGATTTAGAAATTTTGAACGTTAATTAGATA
Found at i:22398781 original size:16 final size:16
Alignment explanation
Indices: 22398760--22398807 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
22398750 AAATAACACG
22398760 TTTAAATTTAAAAATA
1 TTTAAATTTAAAAATA
*
22398776 TTTAAAATTAAAAA-A
1 TTTAAATTTAAAAATA
*
22398791 ATTAAATCTTATAAAAT
1 TTTAAAT-TTA-AAAAT
22398808 CAAAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.23
16 16 0.62
17 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTAAATTTAAAAATA
Found at i:22401345 original size:16 final size:17
Alignment explanation
Indices: 22401323--22401362 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
22401313 TAATACTATT
*
22401323 TAAAATTATTATTTAAA
1 TAAAATTATTATTAAAA
22401340 -AAAATTATTATTAAAA
1 TAAAATTATTATTAAAA
22401356 TAAAATT
1 TAAAATT
22401363 GAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTATTATTAAAA
Found at i:22401412 original size:16 final size:16
Alignment explanation
Indices: 22401366--22401415 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
22401356 TAAAATTGAA
22401366 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
22401383 A-A--AATAATAAATT
1 ATATTAATAATTTATT
22401396 ATATTAATAATTTATT
1 ATATTAATAATTTATT
22401412 ATAT
1 ATAT
22401416 GACTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:22402038 original size:19 final size:18
Alignment explanation
Indices: 22402014--22402082 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 18
22402004 AAGGTCAATT
22402014 GTATCGATACCTTTGTAAA
1 GTATCGATACCTTTGT-AA
22402033 GTATCGATACTCTAATT-TAA
1 GTATCGATAC-CT--TTGTAA
*
22402053 GTATCGATA-CTTTAGTCCA
1 GTATCGATACCTTT-GT-AA
22402072 GTATCGATACC
1 GTATCGATACC
22402083 ATTTTGGGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
16 2 0.05
18 3 0.07
19 20 0.48
20 14 0.33
21 1 0.02
22 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (18 bp):
GTATCGATACCTTTGTAA
Found at i:22408327 original size:39 final size:39
Alignment explanation
Indices: 22408273--22408350 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
22408263 TTTTTTAATT
* *
22408273 TCTCTAAATTTTAGGGTCAAGTTGTGAATATAAAAAATA
1 TCTCTAAACTTTAGGGTCAAGTTGTAAATATAAAAAATA
* *
22408312 TCTCTAAACTTTAGGGTCAATTTGTAAATATGAAAAATA
1 TCTCTAAACTTTAGGGTCAAGTTGTAAATATAAAAAATA
22408351 ATGACCCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (39 bp):
TCTCTAAACTTTAGGGTCAAGTTGTAAATATAAAAAATA
Found at i:22408524 original size:61 final size:60
Alignment explanation
Indices: 22408421--22408619 Score: 194
Period size: 61 Copynumber: 3.2 Consensus size: 60
22408411 AGCACTTTTA
*
22408421 TATTAAATTAATATAATACTTATC---AAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATATAATA-TTATCTATAAGATAAATATTAAATTAAATTTAATATTAAATC
* *
22408479 TATTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTAAA-TTAATATTAAGATAA
1 TATTAAATTAATATAATA-TTATCTATAAGATAAATATTAAATTAAATTTAATATTAA-AT-C
** *
22408541 TCACTTTAATATTAA-ATTAATAAAATGCTATTAAGATAAGTA-TAAATTAAATTTAATATTAAA
1 T-A--TTAA-ATTAATA-TAATATTAT-CTA-TAAGATAAATATTAAATTAAATTTAATATTAAA
22408604 TC
59 TC
*
22408606 TATTAAAATAATAT
1 TATTAAATTAATAT
22408620 TATTTTGAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
58 22 0.19
60 10 0.09
61 26 0.22
62 6 0.05
63 1 0.01
64 1 0.01
65 8 0.07
66 23 0.20
67 20 0.17
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (60 bp):
TATTAAATTAATATAATATTATCTATAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:22411421 original size:34 final size:34
Alignment explanation
Indices: 22411378--22411443 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
22411368 GATTCAAGAT
22411378 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
*
22411412 TTTCATGATCGGTAACGAAGGAAAGAGGAGCT
1 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCT
22411444 TGAGAGTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (34 bp):
TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
Found at i:22411962 original size:16 final size:17
Alignment explanation
Indices: 22411934--22411969 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22411924 AAATCACGCC
*
22411934 ATTAATGTCACAAGTGA
1 ATTAATGTCACAAATGA
22411951 ATTAAT-TCACAAATGA
1 ATTAATGTCACAAATGA
22411967 ATT
1 ATT
22411970 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
ATTAATGTCACAAATGA
Found at i:22411980 original size:11 final size:12
Alignment explanation
Indices: 22411950--22411982 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
22411940 GTCACAAGTG
22411950 AATTAATTCACA
1 AATTAATTCACA
*
22411962 AATGAATTCA-A
1 AATTAATTCACA
22411973 AATTAATTCA
1 AATTAATTCA
22411983 TCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:22412514 original size:34 final size:34
Alignment explanation
Indices: 22412471--22412536 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
22412461 GATTCAAGAT
*
22412471 TTTCATGATCGGTAAAGAAGGAAAGATGAGCTAG
1 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
22412505 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCT
1 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCT
22412537 TGAGAGTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.30, T:0.23
Consensus pattern (34 bp):
TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
Found at i:22413055 original size:16 final size:17
Alignment explanation
Indices: 22413027--22413062 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22413017 AAATCACGCC
*
22413027 ATTAATGTCACAAGTGA
1 ATTAATGTCACAAATGA
22413044 ATTAAT-TCACAAATGA
1 ATTAATGTCACAAATGA
22413060 ATT
1 ATT
22413063 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
ATTAATGTCACAAATGA
Found at i:22413073 original size:11 final size:12
Alignment explanation
Indices: 22413043--22413075 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
22413033 GTCACAAGTG
22413043 AATTAATTCACA
1 AATTAATTCACA
*
22413055 AATGAATTCA-A
1 AATTAATTCACA
22413066 AATTAATTCA
1 AATTAATTCA
22413076 TCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:22415199 original size:17 final size:17
Alignment explanation
Indices: 22415177--22415211 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22415167 AAATATAATG
*
22415177 AATGCTCAAAAGTGTTT
1 AATGCTCAAAAGAGTTT
22415194 AATGCTCAAAAGAGTTT
1 AATGCTCAAAAGAGTTT
22415211 A
1 A
22415212 CAAGAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
AATGCTCAAAAGAGTTT
Found at i:22419292 original size:22 final size:22
Alignment explanation
Indices: 22419267--22419309 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22419257 ACAAACTTTA
*
22419267 TCTAATTTAAAATCATTTTTTT
1 TCTAAGTTAAAATCATTTTTTT
22419289 TCTAAGTTAAAATCATTTTTT
1 TCTAAGTTAAAATCATTTTTT
22419310 GGCAATCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (22 bp):
TCTAAGTTAAAATCATTTTTTT
Found at i:22421664 original size:21 final size:20
Alignment explanation
Indices: 22421640--22421679 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22421630 ATAAAAATAC
22421640 AAAAGGTATCAATACTTTTTG
1 AAAA-GTATCAATACTTTTTG
**
22421661 AAAAGTATTGATACTTTTT
1 AAAAGTATCAATACTTTTT
22421680 TGTTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (20 bp):
AAAAGTATCAATACTTTTTG
Found at i:22421834 original size:20 final size:20
Alignment explanation
Indices: 22421809--22421846 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22421799 AGGAGTAGTT
*
22421809 TTTCAATCAATTTAAAAATG
1 TTTCAATCAAGTTAAAAATG
*
22421829 TTTCAATTAAGTTAAAAA
1 TTTCAATCAAGTTAAAAA
22421847 AAGTTTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTCAATCAAGTTAAAAATG
Found at i:22421852 original size:21 final size:20
Alignment explanation
Indices: 22421809--22421852 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
22421799 AGGAGTAGTT
* *
22421809 TTTCAATCAATTTAAAAATG
1 TTTCAATCAATTAAAAAAAG
*
22421829 TTTCAATTAAGTTAAAAAAAG
1 TTTCAATCAA-TTAAAAAAAG
22421850 TTT
1 TTT
22421853 AAACCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTCAATCAATTAAAAAAAG
Found at i:22435034 original size:28 final size:27
Alignment explanation
Indices: 22434988--22435053 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
22434978 TGTTGAATTT
* * * *
22434988 TTTTTGAATGTATTCGGGTTCATCAAA
1 TTTTTGAATGAAATAGGGTTAATCAAA
*
22435015 GTTTTTGAATGAAATAGGGTTAATGAAA
1 -TTTTTGAATGAAATAGGGTTAATCAAA
*
22435043 TTTTTAAATGA
1 TTTTTGAATGA
22435054 TATTTTCAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (27 bp):
TTTTTGAATGAAATAGGGTTAATCAAA
Found at i:22437279 original size:30 final size:29
Alignment explanation
Indices: 22437229--22437294 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
22437219 AAAGTTTGGG
* * *
22437229 TACCAATCTGGGATAAAAAAACCCGTAGC
1 TACCAATCTGGGAAAAAAAAAACCATAGC
*
22437258 TACCAATCTGGGACAAAAAAAAACCATAGG
1 TACCAATCTGGGA-AAAAAAAAACCATAGC
22437288 TACCAAT
1 TACCAAT
22437295 ATCGGAGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (29 bp):
TACCAATCTGGGAAAAAAAAAACCATAGC
Found at i:22442997 original size:26 final size:26
Alignment explanation
Indices: 22442961--22443143 Score: 147
Period size: 26 Copynumber: 7.1 Consensus size: 26
22442951 ATGAAAAAGT
*
22442961 AGGCCTTGAACCGATGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * * *
22442987 AGGCCTTGA-ACTAGTGGTTATTTAGT
1 AGGCCTTGAGCCGA-TGTTTATTTAGC
* *
22443013 AGGCCTCGAGCCGGTGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * *
22443039 AGGCATTGAGCCAATG-TAATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* *
22443064 AGGCCTTGAGTCTATGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
** * * * *
22443090 AGGCC-TGAGTAGGTGATTAGTTACC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * *
22443115 AGGCTTTGACCCGATGTATATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
22443141 AGG
1 AGG
22443144 TACTACGTAC
Statistics
Matches: 119, Mismatches: 34, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
25 41 0.34
26 77 0.65
27 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (26 bp):
AGGCCTTGAGCCGATGTTTATTTAGC
Found at i:22443036 original size:52 final size:51
Alignment explanation
Indices: 22442958--22443095 Score: 168
Period size: 52 Copynumber: 2.7 Consensus size: 51
22442948 ATAATGAAAA
* * * *
22442958 AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTT
1 AGTAGGCCTTGAGCCGATGTTTATTTAGCAGGCCTTGAACCAAT-GTAATTT
* * * *
22443010 AGTAGGCCTCGAGCCGGTGTTTATTTAGCAGGCATTGAGCCAATGTAATTT
1 AGTAGGCCTTGAGCCGATGTTTATTTAGCAGGCCTTGAACCAATGTAATTT
* * *
22443061 AGCAGGCCTTGAGTCTATGTTTATTTAGCAGGCCT
1 AGTAGGCCTTGAGCCGATGTTTATTTAGCAGGCCT
22443096 GAGTAGGTGA
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 35 0.49
52 37 0.51
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (51 bp):
AGTAGGCCTTGAGCCGATGTTTATTTAGCAGGCCTTGAACCAATGTAATTT
Found at i:22443082 original size:51 final size:52
Alignment explanation
Indices: 22442961--22443093 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 52
22442951 ATGAAAAAGT
* * * * * * *
22442961 AGGCCTTGAACCGATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTTAGT
1 AGGCCTCGAGCCGATGTTTATTTAGCAGGCATTGAACCAATGGTAATTTAGC
* *
22443013 AGGCCTCGAGCCGGTGTTTATTTAGCAGGCATTGAGCCAAT-GTAATTTAGC
1 AGGCCTCGAGCCGATGTTTATTTAGCAGGCATTGAACCAATGGTAATTTAGC
* * *
22443064 AGGCCTTGAGTCTATGTTTATTTAGCAGGC
1 AGGCCTCGAGCCGATGTTTATTTAGCAGGC
22443094 CTGAGTAGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 34 0.50
52 34 0.50
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (52 bp):
AGGCCTCGAGCCGATGTTTATTTAGCAGGCATTGAACCAATGGTAATTTAGC
Found at i:22443138 original size:77 final size:78
Alignment explanation
Indices: 22442961--22443143 Score: 210
Period size: 77 Copynumber: 2.4 Consensus size: 78
22442951 ATGAAAAAGT
* * * *
22442961 AGGCCTTGAACCGATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTTAGTAGGCCTCGAGCCG
1 AGGCATTGAACCGATGTATATTTAGCAGGCCTTGAACTAGTGGTTATTTAGCAGGCCTCGAGCAG
* * *
22443026 GTGTTTATTTAGC
66 GTGATTAGTTACC
* * * * *
22443039 AGGCATTGAGCCAATGTA-ATTTAGCAGGCCTTGAGTCTA-TGTTTATTTAGCAGGCCT-GAGTA
1 AGGCATTGAACCGATGTATATTTAGCAGGCCTTGA-ACTAGTGGTTATTTAGCAGGCCTCGAGCA
22443101 GGTGATTAGTTACC
65 GGTGATTAGTTACC
* *
22443115 AGGCTTTGACCCGATGTATATTTAGCAGG
1 AGGCATTGAACCGATGTATATTTAGCAGG
22443144 TACTACGTAC
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
76 29 0.33
77 42 0.48
78 17 0.19
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (78 bp):
AGGCATTGAACCGATGTATATTTAGCAGGCCTTGAACTAGTGGTTATTTAGCAGGCCTCGAGCAG
GTGATTAGTTACC
Found at i:22446430 original size:25 final size:26
Alignment explanation
Indices: 22446402--22446466 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
22446392 CTATAAAATT
* *
22446402 AAATATATTTAAATT-AATTCATAAA
1 AAATATATTTAAATTCAATTAAGAAA
* *
22446427 AAATATATTTAACTTCAATTAAGAAT
1 AAATATATTTAAATTCAATTAAGAAA
22446453 AAATAT-TTTAAATT
1 AAATATATTTAAATT
22446467 TATATGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 21 0.62
26 13 0.38
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
AAATATATTTAAATTCAATTAAGAAA
Found at i:22460522 original size:31 final size:31
Alignment explanation
Indices: 22460484--22460546 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
22460474 TTTGGGTGTT
22460484 AAATAAATAAAGTAGAAGAAAAGAAATATTA
1 AAATAAATAAAGTAGAAGAAAAGAAATATTA
22460515 AAATAAATAAAGTAGAAGAAAAGAAATATTA
1 AAATAAATAAAGTAGAAGAAAAGAAATATTA
22460546 A
1 A
22460547 CAATTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (31 bp):
AAATAAATAAAGTAGAAGAAAAGAAATATTA
Found at i:22460860 original size:14 final size:14
Alignment explanation
Indices: 22460821--22460860 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
22460811 TAAGTCTTAA
* *
22460821 AAAATATAAATCCC
1 AAAATAAAAATTCC
22460835 AAAATAAAAATTCC
1 AAAATAAAAATTCC
22460849 AAAATAAAAATT
1 AAAATAAAAATT
22460861 AAAAATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAAAATTCC
Found at i:22464210 original size:6 final size:6
Alignment explanation
Indices: 22464199--22464255 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
22464189 TTCTCCTCTC
* * * *
22464199 TCCCCT TCCCCT TCCCCT TCCCCT TTCCCT TTCCCT TTCCCT TTCCCT
1 TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
*
22464247 TTCCCT TCC
1 TCCCCT TCC
22464256 TCTTAGGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (6 bp):
TCCCCT
Found at i:22464216 original size:12 final size:12
Alignment explanation
Indices: 22464201--22464255 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
22464191 CTCCTCTCTC
*
22464201 CCCTTCCCCTTC
1 CCCTTCCCCTTT
22464213 CCCTTCCCCTTT
1 CCCTTCCCCTTT
*
22464225 CCCTTTCCCTTT
1 CCCTTCCCCTTT
*
22464237 CCCTTTCCCTTT
1 CCCTTCCCCTTT
22464249 CCCTTCC
1 CCCTTCC
22464256 TCTTAGGTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (12 bp):
CCCTTCCCCTTT
Found at i:22464222 original size:18 final size:18
Alignment explanation
Indices: 22464199--22464255 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
22464189 TTCTCCTCTC
* *
22464199 TCCCCTTCCCCTTCCCCT
1 TCCCCTTTCCCTTTCCCT
22464217 TCCCCTTTCCCTTTCCCT
1 TCCCCTTTCCCTTTCCCT
*
22464235 TTCCCTTTCCCTTTCCCT
1 TCCCCTTTCCCTTTCCCT
22464253 TCC
1 TCC
22464256 TCTTAGGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCCCTTTCCCTTTCCCT
Found at i:22467061 original size:20 final size:20
Alignment explanation
Indices: 22467036--22467074 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22467026 ATATTTTCAA
*
22467036 TAAATCATTTTCTAGAAAAG
1 TAAATCATTTTCCAGAAAAG
22467056 TAAATCATTTTCCAGAAAA
1 TAAATCATTTTCCAGAAAA
22467075 AATTTTCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
TAAATCATTTTCCAGAAAAG
Found at i:22467835 original size:13 final size:15
Alignment explanation
Indices: 22467805--22467836 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22467795 ATATTTCATG
22467805 CATTTCATCAATAAT
1 CATTTCATCAATAAT
22467820 CATTTCAT-AA-AAT
1 CATTTCATCAATAAT
22467833 CATT
1 CATT
22467837 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTTCATCAATAAT
Found at i:22468347 original size:6 final size:6
Alignment explanation
Indices: 22468336--22468364 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22468326 GTAACGGTGG
22468336 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
22468365 TTCAACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:22468393 original size:39 final size:39
Alignment explanation
Indices: 22468350--22468487 Score: 145
Period size: 39 Copynumber: 3.4 Consensus size: 39
22468340 AACAGTAACA
* *
22468350 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAAGCT
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAAGCT
22468389 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG-AG-T
1 GTAAC----A--GTAACAGTATTCGACACACAAAGTGCCGAAGCT
* * *
22468432 CGATAACAGTAACAGTGTTCGACACACAAAGTGCCGAATCA
1 -G-TAACAGTAACAGTATTCGACACACAAAGTGCCGAAGCT
22468473 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
22468488 ATAGTAGTCG
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
39 45 0.54
40 2 0.02
41 1 0.01
43 2 0.02
44 3 0.04
45 30 0.36
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAAGCT
Found at i:22468394 original size:45 final size:43
Alignment explanation
Indices: 22468344--22468510 Score: 175
Period size: 45 Copynumber: 3.9 Consensus size: 43
22468334 GGCAGTAACA
* *
22468344 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAGC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C
*
22468388 TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG-A-
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAC
*
22468430 GT--C-GATAACAGTAACAGTGTTCGACACACAAAGTGCCGAATC
1 GTAACAG-TAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C
* * * *
22468472 AGTAACAGTAACAGTAATAGTAGTCGGCACA-TAAGTGCC
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCC
22468511 TAATCAGTAA
Statistics
Matches: 104, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
38 1 0.01
39 32 0.31
40 1 0.01
41 2 0.02
43 2 0.02
44 8 0.08
45 57 0.55
46 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (43 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAC
Found at i:22468457 original size:84 final size:83
Alignment explanation
Indices: 22468351--22468510 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 83
22468341 ACAGTAACAG
* * * *
22468351 TAACAGTAACAGTATTCAACACACAAAGTGCTGAAGCTGTAACAGTAACGGTAACAGTATTCGAC
1 TAACAGTAACAGTATTCAACACACAAAGTGCCGAAGCAGTAACAGTAACAGTAACAGTAGTCGAC
22468416 ACACAAAGTGCCGAGTCGA
66 ACA-AAAGTGCCGAGTCGA
* * * * *
22468435 TAACAGTAACAGTGTTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTAATAGTAGTCGGC
1 TAACAGTAACAGTATTCAACACACAAAGTGCCGAAGCAGTAACAGTAACAGTAACAGTAGTCGAC
*
22468500 ACATAAGTGCC
66 ACAAAAGTGCC
22468511 TAATCAGTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 7 0.11
84 59 0.89
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (83 bp):
TAACAGTAACAGTATTCAACACACAAAGTGCCGAAGCAGTAACAGTAACAGTAACAGTAGTCGAC
ACAAAAGTGCCGAGTCGA
Found at i:22479668 original size:69 final size:69
Alignment explanation
Indices: 22479504--22479678 Score: 199
Period size: 69 Copynumber: 2.5 Consensus size: 69
22479494 AAATAGGTTT
* * * * *
22479504 AAGGTTTAAGACCGTAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGTGA
1 AAGGTGTAAGACCATAGCTTGACTATGGCAACCAATAGAGTCTGATGGGACAGTAAACACGGGGA
*
22479569 TTTT
66 TTTC
* * * * * * *
22479573 AAGGTGTAAGACCACAAC-TCAGCTATGGCAACCAATAGAGTCTGCTGGGATAGTGAACATGGGG
1 AAGGTGTAAGACCATAGCTTGA-CTATGGCAACCAATAGAGTCTGATGGGACAGTAAACACGGGG
22479637 ATTTC
65 ATTTC
* *
22479642 AAGGTGTAAGACAATAGCTTGACTATGACAACCAATA
1 AAGGTGTAAGACCATAGCTTGACTATGGCAACCAATA
22479679 AAGCTCGCAG
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
68 1 0.01
69 83 0.97
70 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (69 bp):
AAGGTGTAAGACCATAGCTTGACTATGGCAACCAATAGAGTCTGATGGGACAGTAAACACGGGGA
TTTC
Found at i:22482356 original size:16 final size:16
Alignment explanation
Indices: 22482318--22482356 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22482308 TTATTTATAA
*
22482318 TATTTATTTTAAAATTT
1 TATTT-TTTTAAAATAT
22482335 TATTTTTTTAAAATAT
1 TATTTTTTTAAAATAT
*
22482351 TCTTTT
1 TATTTT
22482357 GAGATATCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTTTTAAAATAT
Found at i:22487355 original size:27 final size:27
Alignment explanation
Indices: 22487324--22487379 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
22487314 AAACATATAG
* *
22487324 AGTCCGTTGGGACACT-AAACACGGGGT
1 AGTCCGTTAGGACA-TAAAACACAGGGT
22487351 AGTCCGTTAGGACATAAAACACAGGGT
1 AGTCCGTTAGGACATAAAACACAGGGT
22487378 AG
1 AG
22487380 CCTGCCAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (27 bp):
AGTCCGTTAGGACATAAAACACAGGGT
Found at i:22489588 original size:13 final size:13
Alignment explanation
Indices: 22489570--22489595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22489560 GGTTTTCTCC
22489570 AAAATGAAAATGA
1 AAAATGAAAATGA
22489583 AAAATGAAAATGA
1 AAAATGAAAATGA
22489596 CTTGGAAATG
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:22501293 original size:14 final size:15
Alignment explanation
Indices: 22501268--22501298 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22501258 ATTAACAAGG
22501268 TAAATAAAAAATATT
1 TAAATAAAAAATATT
22501283 TAAAT-AAAAATATT
1 TAAATAAAAAATATT
22501297 TA
1 TA
22501299 CTTAACTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAATAAAAAATATT
Found at i:22503159 original size:17 final size:17
Alignment explanation
Indices: 22503132--22503164 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22503122 TCACTACATT
22503132 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
22503150 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
22503165 TAAAATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:22503383 original size:21 final size:20
Alignment explanation
Indices: 22503345--22503384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22503335 ATTCAACAAT
* *
22503345 TATTATATCACTTTACACTC
1 TATTATATCACATAACACTC
22503365 TATTACTATCACATAACACT
1 TATTA-TATCACATAACACT
22503385 TCATTTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (20 bp):
TATTATATCACATAACACTC
Found at i:22504763 original size:22 final size:22
Alignment explanation
Indices: 22504736--22504786 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
22504726 CTCTCTAATC
22504736 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
22504758 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
22504780 CTCTCAA
1 CTCTCAA
22504787 ATCCATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:22504825 original size:11 final size:11
Alignment explanation
Indices: 22504805--22504855 Score: 54
Period size: 10 Copynumber: 4.9 Consensus size: 11
22504795 TTTAAAATAA
22504805 TTATAATTTTT
1 TTATAATTTTT
22504816 TTAT-ATTTTT
1 TTATAATTTTT
* **
22504826 TTAAAATAATT
1 TTATAATTTTT
22504837 TTA-AATTTTT
1 TTATAATTTTT
22504847 TTAT-ATTTT
1 TTATAATTTT
22504856 CATCAATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 22 0.67
11 11 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:22504828 original size:30 final size:31
Alignment explanation
Indices: 22504792--22504855 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
22504782 CTCAAATCCA
22504792 TTTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
*
22504822 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
22504853 TTT
1 TTT
22504856 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:22506617 original size:18 final size:18
Alignment explanation
Indices: 22506596--22506630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22506586 AGGTATGTTT
* *
22506596 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
22506614 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
22506631 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:22506946 original size:21 final size:23
Alignment explanation
Indices: 22506890--22506957 Score: 95
Period size: 24 Copynumber: 3.0 Consensus size: 23
22506880 TGCCGAACTA
22506890 GAAGAACCACAACCACCACCGGAG
1 GAAGAA-CACAACCACCACCGGAG
*
22506914 GAAGAACTACAATCACCACCGGAG
1 GAAGAAC-ACAACCACCACCGGAG
22506938 GAAG-A-ACAACCACCACCGGA
1 GAAGAACACAACCACCACCGGA
22506958 AGATAGAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
21 14 0.34
23 2 0.05
24 25 0.61
ACGTcount: A:0.43, C:0.34, G:0.21, T:0.03
Consensus pattern (23 bp):
GAAGAACACAACCACCACCGGAG
Found at i:22507205 original size:29 final size:29
Alignment explanation
Indices: 22507173--22507670 Score: 774
Period size: 29 Copynumber: 17.4 Consensus size: 29
22507163 AAAACCCTAA
* * *
22507173 CTAACCCTAAACTAAATTAATTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
* *
22507202 CTAAACATAACCTAAATTAACAAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
* *
22507231 CTAAACCTAACCTAAATTTATTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507260 CT-AATCTAACCTAAATTAACTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507288 CTAAACCTAACCTAAATTAACAAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507317 CTAAACCTAACCTAAATTAACAAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507346 CTAAACCTAACCTAAATTAATTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507375 CT-AATCTAACCTAAATTAACTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
* *
22507403 GTAAACCTAACCTAAATTAACAAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
22507432 CTAAACCTAACCTAAATTAACTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
22507461 CTAAACCTAACCTAAATTAACTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507490 CT-AATCTAACCTAAATTAACTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
22507518 CT-AACCTAACCTAAATTAAC-AAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507545 CTAAACCTAACCTAAATTAACAAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507574 CTAAACCTAACCTAAATTAATTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
* *
22507603 CT-AATCTAACCTAAGTTAACTAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
*
22507631 CTAAACCTAACCTAAATTAACAAAAAACC
1 CTAAACCTAACCTAAATTAACTAAAAACC
22507660 CTAAACCTAAC
1 CTAAACCTAAC
22507671 NNNNNNNNNN
Statistics
Matches: 431, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
27 9 0.02
28 137 0.32
29 285 0.66
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (29 bp):
CTAAACCTAACCTAAATTAACTAAAAACC
Found at i:22507286 original size:86 final size:86
Alignment explanation
Indices: 22507173--22507670 Score: 795
Period size: 86 Copynumber: 5.8 Consensus size: 86
22507163 AAAACCCTAA
* * *
22507173 CTAACCCTAAACTAAATTAATTAAAAACCCTAAACATAACCTAAATTAACAAAAAACCCTAAACC
1 CTAA-CCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
* *
22507238 TAACCTAAATTTATTAAAAACC
65 TAACCTAAATTAACTAAAAACC
*
22507260 CTAATCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
1 CTAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
*
22507325 AACCTAAATTAACAAAAAACC
66 AACCTAAATTAACTAAAAACC
* * * *
22507346 CTAAACCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCGTAAACC
1 CT-AACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
*
22507410 TAACCTAAATTAACAAAAAACC
65 TAACCTAAATTAACTAAAAACC
* *
22507432 CTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AATC
1 CT-AACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
22507496 TAACCTAAATTAACTAAAAACC
65 TAACCTAAATTAACTAAAAACC
22507518 CTAACCTAACCTAAATTAAC-AAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
1 CTAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
*
22507582 AACCTAAATTAATTAAAAACC
66 AACCTAAATTAACTAAAAACC
* *
22507603 CTAATCTAACCTAAGTTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
1 CTAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
22507668 AAC
66 AAC
22507671 NNNNNNNNNN
Statistics
Matches: 385, Mismatches: 22, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
84 37 0.10
85 60 0.16
86 232 0.60
87 56 0.15
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (86 bp):
CTAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACCT
AACCTAAATTAACTAAAAACC
Found at i:22507318 original size:115 final size:115
Alignment explanation
Indices: 22507173--22507670 Score: 892
Period size: 115 Copynumber: 4.3 Consensus size: 115
22507163 AAAACCCTAA
* * ** *
22507173 CTAACCCTAAACTAAATTAATTAAAAACCCTAAACATAACCTAAATTAACAAAAAACCCTAAACC
1 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
*
22507238 TAACCTAAATTTATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
66 TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
22507288 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
1 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
22507353 TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
66 TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
* *
22507403 GTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACC
1 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
*
22507468 TAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
66 TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
22507518 CT-AACCTAACCTAAATTAAC-AAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
1 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
*
22507581 TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAGTTAACTAAAAACC
66 TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
22507631 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAAC
1 CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAAC
22507671 NNNNNNNNNN
Statistics
Matches: 368, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
113 92 0.25
114 36 0.10
115 240 0.65
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (115 bp):
CTAAACCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAAACC
TAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAACC
Found at i:22507447 original size:11 final size:10
Alignment explanation
Indices: 22507259--22507651 Score: 74
Period size: 9 Copynumber: 41.1 Consensus size: 10
22507249 TATTAAAAAC
*
22507259 CCTAATCTAA
1 CCTAAACTAA
*
22507269 CCTAAATTAA
1 CCTAAACTAA
22507279 -CTAAA--AA
1 CCTAAACTAA
22507286 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507298 CCTAAATTAA
1 CCTAAACTAA
*
22507308 -C-AAA-AAA
1 CCTAAACTAA
22507315 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507327 CCTAAATTAA
1 CCTAAACTAA
*
22507337 -C-AAA-AAA
1 CCTAAACTAA
22507344 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507356 CCTAAATTAA
1 CCTAAACTAA
*
22507366 -TTAAA--AA
1 CCTAAACTAA
*
22507373 CCCTAATCTAA
1 -CCTAAACTAA
*
22507384 CCTAAATTAA
1 CCTAAACTAA
22507394 -CTAAA--AA
1 CCTAAACTAA
22507401 CCGTAAACCTAA
1 CC-TAAA-CTAA
*
22507413 CCTAAATTAA
1 CCTAAACTAA
*
22507423 -C-AAA-AAA
1 CCTAAACTAA
22507430 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507442 CCTAAATTAA
1 CCTAAACTAA
22507452 -CTAAA--AA
1 CCTAAACTAA
22507459 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507471 CCTAAATTAA
1 CCTAAACTAA
22507481 -CTAAA--AA
1 CCTAAACTAA
*
22507488 CCCTAATCTAA
1 -CCTAAACTAA
*
22507499 CCTAAATTAA
1 CCTAAACTAA
22507509 -CTAAA--AA
1 CCTAAACTAA
*
22507516 CCCTAACCTAA
1 -CCTAAACTAA
*
22507527 CCTAAATTAA
1 CCTAAACTAA
22507537 -C-AAA--AA
1 CCTAAACTAA
22507543 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507555 CCTAAATTAA
1 CCTAAACTAA
*
22507565 -C-AAA-AAA
1 CCTAAACTAA
22507572 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507584 CCTAAATTAA
1 CCTAAACTAA
*
22507594 -TTAAA--AA
1 CCTAAACTAA
*
22507601 CCCTAATCTAA
1 -CCTAAACTAA
**
22507612 CCTAAGTTAA
1 CCTAAACTAA
22507622 -CTAAA--AA
1 CCTAAACTAA
22507629 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
22507641 CCTAAATTAA
1 CCTAAACTAA
22507651 C
1 C
22507652 AAAAAACCCT
Statistics
Matches: 285, Mismatches: 36, Indels: 124
0.64 0.08 0.28
Matches are distributed among these distances:
6 2 0.01
7 24 0.08
8 17 0.06
9 82 0.29
10 80 0.28
11 60 0.21
12 20 0.07
ACGTcount: A:0.52, C:0.26, G:0.01, T:0.21
Consensus pattern (10 bp):
CCTAAACTAA
Found at i:22511175 original size:125 final size:125
Alignment explanation
Indices: 22510944--22511281 Score: 615
Period size: 125 Copynumber: 2.7 Consensus size: 125
22510934 CCCAAACTTG
*
22510944 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
22511009 TAGAAACGATTTTATACTATTTGCTCAAAAACATCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAAAAACATCAAAAAAAAATTATTTCTTACATGAC
*
22511069 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
22511134 TAGAAACGATTTTATACTATTTGCTCAGAAAA-ATCAGAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCA-AAAACATCAAAAAAAAATTATTTCTTACATGAC
*
22511194 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
22511259 TAGAAGCGATTTTATACTATTTG
66 TAGAAACGATTTTATACTATTTG
22511282 ACCAGAGACG
Statistics
Matches: 206, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 202 0.98
126 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAAAAACATCAAAAAAAAATTATTTCTTACATGAC
Found at i:22511559 original size:29 final size:28
Alignment explanation
Indices: 22511501--22511565 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
22511491 GATTTCGCGG
*
22511501 AAAATGGACCATTCCGGTAAATAATCAA
1 AAAATGGACCATTCCGGTAAATAATAAA
* * **
22511529 AAAATCGGCCCATTTCGGTAAATTTTAAA
1 AAAAT-GGACCATTCCGGTAAATAATAAA
22511558 AAAA-GGAC
1 AAAATGGAC
22511566 TTTTTCTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.10
28 5 0.17
29 22 0.73
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (28 bp):
AAAATGGACCATTCCGGTAAATAATAAA
Found at i:22513725 original size:24 final size:24
Alignment explanation
Indices: 22513690--22513735 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
22513680 AATGTTACAT
22513690 AAATTTACTATGT-TCTATTATTCA
1 AAATTTACTATGTCTC-ATTATTCA
*
22513714 AAATTTATTATGTCTCATTATT
1 AAATTTACTATGTCTCATTATT
22513736 TAAATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACTATGTCTCATTATTCA
Found at i:22514060 original size:28 final size:28
Alignment explanation
Indices: 22513986--22514061 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
22513976 TTTCCGCTAC
22513986 TTTAACATTTTAATTTATCTCAACTTAT
1 TTTAACATTTTAATTTATCTCAACTTAT
* * * *
22514014 TTCAATATTGTTAGTTTAT-TCAAATTTAT
1 TTTAACATT-TTAATTTATCTC-AACTTAT
*
22514043 TTTAACCTTTTAATTTATC
1 TTTAACATTTTAATTTATC
22514062 CATGTTATAC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 17 0.46
29 20 0.54
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (28 bp):
TTTAACATTTTAATTTATCTCAACTTAT
Found at i:22526659 original size:44 final size:44
Alignment explanation
Indices: 22526591--22526961 Score: 271
Period size: 44 Copynumber: 8.0 Consensus size: 44
22526581 TAGATCGCAT
* *
22526591 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
*
22526635 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* ** * * * *
22526679 CGGATT-AAAATAAAG-GATCTTATCTCTCTGAAGTTACTGTAGAGTAGATCGCAT
1 CAGATTGAAGCT--AGTAATCTTATCTCCCTG-AG--A-T-TACAGT-G---G-AG
* *
22526733 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * ** *
22526777 TAGATTGAAACAAGTAATCCCATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGA-TTACAGT---G--GA--G
* *
22526828 CATTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 C---AGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* **
22526875 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTATAGCAGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * *
22526919 CAGATTGAAGCTGGTAATCCTATTTCCCTAAGATTACAGTGGA
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGA
22526962 ACGGATTAAA
Statistics
Matches: 255, Mismatches: 46, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
43 4 0.02
44 163 0.64
45 5 0.02
47 4 0.02
48 2 0.01
49 13 0.05
50 2 0.01
51 3 0.01
53 5 0.02
54 50 0.20
55 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:22526749 original size:142 final size:141
Alignment explanation
Indices: 22526516--22527019 Score: 578
Period size: 142 Copynumber: 3.5 Consensus size: 141
22526506 TAAGTCTTAG
*
22526516 CTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTATAGTAGAG
1 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAT-GTAGAG
* *
22526581 TAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGC
65 TAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
22526646 TAGTAATCCTAT
130 TAGTAATCCTAT
22526658 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGAG
1 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA-TGTAGAG
* *
22526723 TAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAAC
65 TAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
* *
22526788 AAGTAATCCCAT
130 TAGTAATCCTAT
* * * * * *
22526800 CTCTCTGA-AGTTACAGTAGAGTAGATCGCATTAGATTGAAGCCAGAAATCTTATCTCCCTG-AG
1 CTCCCTGAGA-TTACAGT-G-G-AG--CGGATTAAAAT-AA---AG-GATCTTATCTCTCTGAAG
* * * * *
22526863 --AT-TACAGT-G---G-AGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTATAGCAGAGC
55 TTATGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
*
22526920 AGATTGAAGCTGGTAATCCTAT
120 AGATTGAAGCTAGTAATCCTAT
* * * * * **
22526942 TTCCCTAAGATTACAGTGGAACGGATTAAAGTAAAGGATCTTATCTCTCTAAAGTTACAATAGAG
1 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA-TGTAGAG
22527007 TAGATCGCATCAG
65 TAGATCGCATCAG
22527020 GTTTTATCTC
Statistics
Matches: 303, Mismatches: 36, Indels: 46
0.79 0.09 0.12
Matches are distributed among these distances:
132 12 0.04
133 4 0.01
135 1 0.00
136 2 0.01
137 13 0.04
138 1 0.00
139 1 0.00
140 1 0.00
141 3 0.01
142 223 0.74
143 4 0.01
144 1 0.00
145 2 0.01
146 1 0.00
147 13 0.04
148 3 0.01
149 1 0.00
151 4 0.01
152 13 0.04
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (141 bp):
CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATGTAGAGT
AGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT
AGTAATCCTAT
Found at i:22526779 original size:54 final size:53
Alignment explanation
Indices: 22526695--22526879 Score: 149
Period size: 54 Copynumber: 3.6 Consensus size: 53
22526685 AAAATAAAGG
* * * *
22526695 ATCTTATCTCTCTGA-AGTTACTGTAGAGTAGATCGCATCAGATTGAAGCTAGAA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGCAT-AGATTGAAGCAAGAA
* *
22526749 ATCTTATCTCCCTGAGATTACAGCGGAGTAGAT----T-GA---AA-CAAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGCATAGATTGAAGCAAGAA
** * * *
22526793 ATCCCATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATTAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGCA-TAGATTGAAGCAAGAA
*
22526847 ATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGAT
22526880 TGAAGCTAGT
Statistics
Matches: 100, Mismatches: 18, Indels: 26
0.69 0.12 0.18
Matches are distributed among these distances:
43 1 0.01
44 30 0.30
45 2 0.02
48 2 0.02
49 1 0.01
50 3 0.03
53 2 0.02
54 57 0.57
55 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (53 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGCATAGATTGAAGCAAGAA
Found at i:22526900 original size:98 final size:98
Alignment explanation
Indices: 22526635--22527019 Score: 377
Period size: 98 Copynumber: 4.0 Consensus size: 98
22526625 TACAGTGGAG
* * * * *
22526635 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GATC
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACT--AGTAATC
*
22526698 TTATCTCTCTGAAGTTACTGTAGAGTAGATCGCAT
64 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * **
22526733 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAACAAGTAATCCC
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACTAGTAATCTT
22526798 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * *
22526831 TAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCTT
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACTAGTAATCTT
* *
22526896 ATCTCCCTG-AGATT--A-T--AGCAGA--G---
66 ATCTCTCTGAAG-TTACAGTAGAGTAGATCGCAT
* * * * * * * * *
22526919 CAGATTGAAGCTGGTAATCCTATTTCCCTAAGATTACAGTGGAACGGATT-AAAGTAAAG-GATC
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACT--AGTAATC
* *
22526982 TTATCTCTCTAAAGTTACAATAGAGTAGATCGCAT
64 TTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
22527017 CAG
1 CAG
22527020 GTTTTATCTC
Statistics
Matches: 235, Mismatches: 36, Indels: 32
0.78 0.12 0.11
Matches are distributed among these distances:
87 3 0.01
88 55 0.23
89 4 0.02
90 1 0.00
91 2 0.01
93 10 0.04
95 2 0.01
96 1 0.00
97 4 0.02
98 150 0.64
99 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (98 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACTAGTAATCTT
ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:22528891 original size:24 final size:24
Alignment explanation
Indices: 22528856--22528901 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
22528846 AATGTTACAT
22528856 AAATTTACTATGT-TCTATTATTCA
1 AAATTTACTATGTATC-ATTATTCA
*
22528880 AAATTTATTATGTATCATTATT
1 AAATTTACTATGTATCATTATT
22528902 TAAATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACTATGTATCATTATTCA
Found at i:22529185 original size:29 final size:29
Alignment explanation
Indices: 22529140--22529218 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
22529130 TTCTTTCCGC
* *
22529140 TATTTTAACATTTTAATTTATCTC-AACT
1 TATTTCAACATTTTAATTTATCTCAAAAT
*
22529168 TATTTCAATATTGTTAATTTAT-TCAAAAT
1 TATTTCAACATT-TTAATTTATCTCAAAAT
*
22529197 TATTTTAACATTTTAATTTATC
1 TATTTCAACATTTTAATTTATC
22529219 CATGTACTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.54
Consensus pattern (29 bp):
TATTTCAACATTTTAATTTATCTCAAAAT
Found at i:22530189 original size:21 final size:22
Alignment explanation
Indices: 22530149--22530190 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22530139 AATGATTTAT
22530149 AATATTTTATAATATAAAATTA
1 AATATTTTATAATATAAAATTA
*
22530171 AATATTTTAT-ATTTAAAATT
1 AATATTTTATAATATAAAATT
22530191 GTGAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATAATATAAAATTA
Found at i:22540846 original size:21 final size:20
Alignment explanation
Indices: 22540800--22540838 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22540790 AACCTATTGT
22540800 ATTAATAGTTTTTTATAATA
1 ATTAATAGTTTTTTATAATA
22540820 ATTAATA-TTATTTT-TAATA
1 ATTAATAGTT-TTTTATAATA
22540839 TATTTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTAATAGTTTTTTATAATA
Found at i:22551901 original size:48 final size:48
Alignment explanation
Indices: 22551845--22551940 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
22551835 CTATTAGGAG
22551845 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
1 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
*
22551893 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGACACTTAATACAA
1 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
22551941 GAAACATTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (48 bp):
ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
Found at i:22562483 original size:22 final size:22
Alignment explanation
Indices: 22562458--22562523 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
22562448 CATACATATT
22562458 TAATTATTTATATTTAATAATA
1 TAATTATTTATATTTAATAATA
* * *
22562480 TAATAAATTATTAGTATAATTAATA
1 TAATTATTTA-TA-TTTAA-TAATA
22562505 TAATT-TATTAT-TTTAATAA
1 TAATTAT-TTATATTTAATAA
22562524 ATTATTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
21 3 0.09
22 12 0.35
23 2 0.06
24 5 0.15
25 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTATTTATATTTAATAATA
Found at i:22562528 original size:16 final size:19
Alignment explanation
Indices: 22562480--22562529 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
22562470 TTTAATAATA
22562480 TAATAAATTATTAGTATAAT
1 TAATAAATTATTAGTAT-AT
22562500 TAATATAATTTATTA-T-T-T
1 TAATA-AA-TTATTAGTATAT
22562518 TAATAAATTATT
1 TAATAAATTATT
22562530 CAATATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 6 0.21
20 6 0.21
21 3 0.11
22 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAGTATAT
Found at i:22562577 original size:15 final size:16
Alignment explanation
Indices: 22562550--22562580 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22562540 AATTTATTTG
22562550 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
22562566 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
22562581 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:22562776 original size:31 final size:30
Alignment explanation
Indices: 22562714--22562777 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
22562704 ATAAATTTGG
* ** *
22562714 AATTTAGTCCTTATACTTTTATTTTTTAAA
1 AATTTAGTCCCTATACTTTTAGATTTCAAA
*
22562744 AATTTAGTCCCTCTACTTTTTAGATTTCAAA
1 AATTTAGTCCCTATAC-TTTTAGATTTCAAA
22562775 AAT
1 AAT
22562778 CCAGGTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTAGTCCCTATACTTTTAGATTTCAAA
Found at i:22582644 original size:19 final size:20
Alignment explanation
Indices: 22582620--22582659 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22582610 CTTATATTCC
*
22582620 TTAATTAA-TATTTTAAACT
1 TTAATTAATTACTTTAAACT
22582639 TTAATTAATTACTTTAAACT
1 TTAATTAATTACTTTAAACT
22582659 T
1 T
22582660 GATTAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTAATTACTTTAAACT
Found at i:22584347 original size:24 final size:25
Alignment explanation
Indices: 22584320--22584366 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
22584310 GTAAATCAAA
22584320 AAAATATCTCTA-AAAATTTTCTGG
1 AAAATATCTCTAGAAAATTTTCTGG
* * *
22584344 AAAATCTCTTTAGAGAATTTTCT
1 AAAATATCTCTAGAAAATTTTCT
22584367 CTCTACAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (25 bp):
AAAATATCTCTAGAAAATTTTCTGG
Found at i:22584617 original size:20 final size:19
Alignment explanation
Indices: 22584570--22584630 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
22584560 CAAGATAAAC
22584570 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
*
22584587 ACTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
**
22584607 ATTAAATTAATAAAATAAT
1 ATTAAATTAATAATTTAAT
22584626 ATTAA
1 ATTAA
22584631 GATAAGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 12 0.34
20 16 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:22585137 original size:25 final size:25
Alignment explanation
Indices: 22585091--22585138 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
22585081 AAATATTATA
***
22585091 TTAATTTTAATTGATTTGATTTACT
1 TTAATTTTAATTGATCAAATTTACT
*
22585116 TTAATTTTACTTGATCAAATTTA
1 TTAATTTTAATTGATCAAATTTA
22585139 TTTTTTCCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (25 bp):
TTAATTTTAATTGATCAAATTTACT
Found at i:22586882 original size:14 final size:14
Alignment explanation
Indices: 22586860--22586919 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
22586850 TAAATAAACG
*
22586860 AAATTAATATAAAT
1 AAATAAATATAAAT
*
22586874 AAATAAATAAAAAT
1 AAATAAATATAAAT
*
22586888 AAAGAAATGA-AAAT
1 AAATAAAT-ATAAAT
*
22586902 GTAA-AAATATAAAT
1 -AAATAAATATAAAT
22586916 AAAT
1 AAAT
22586920 GAGCAACGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.08
14 31 0.84
15 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (14 bp):
AAATAAATATAAAT
Found at i:22589426 original size:132 final size:132
Alignment explanation
Indices: 22588791--22589423 Score: 1014
Period size: 132 Copynumber: 4.8 Consensus size: 132
22588781 TAGGATTCTC
* * * * * *
22588791 AATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGATTTAATGTACTCCGCTGT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
22588856 AACCACAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
22588921 GA
131 GA
* * *
22588923 AATCTTCAATCTATTCCAATGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
22588988 AACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
22589053 GA
131 GA
* *
22589055 AATCTTCAATATATTCCACTGTAGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* * *
22589120 AACCACATGGAGGTAAAATCCACCATTTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
22589185 GA
131 GA
* *
22589187 AATATTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* * * * * *
22589252 AACCACATGGAGGTAATATCTGCCATTTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
22589317 GA
131 GA
* *
22589319 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCATTAT
1 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
22589384 AACCACAGGGAGGTAAAATCCGCCATCTTCGATTTGCTCC
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
22589424 ACTGTCAATG
Statistics
Matches: 464, Mismatches: 37, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 464 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
GA
Found at i:22593448 original size:24 final size:24
Alignment explanation
Indices: 22593419--22593464 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22593409 ATAATCTTTT
* *
22593419 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATACATTTCCTTTTGAA
*
22593443 GCTGCTCCTACATTTCCTTTTG
1 GCTGCTCATACATTTCCTTTTG
22593465 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATACATTTCCTTTTGAA
Found at i:22600200 original size:15 final size:15
Alignment explanation
Indices: 22600180--22600217 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
22600170 AGGATTTGGT
22600180 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
22600195 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
*
22600210 TTATTTAT
1 TTGTTTAT
22600218 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTGTTTATTTTATTA
Found at i:22600237 original size:13 final size:13
Alignment explanation
Indices: 22600219--22600244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22600209 ATTATTTATC
22600219 ATTTAAATATATA
1 ATTTAAATATATA
22600232 ATTTAAATATATA
1 ATTTAAATATATA
22600245 TAAATTAAAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:22600245 original size:15 final size:14
Alignment explanation
Indices: 22600223--22600259 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
22600213 TTTATCATTT
*
22600223 AAATATATAATTTA
1 AAATATATAAATTA
22600237 AATATATATAAATTA
1 AA-ATATATAAATTA
22600252 AAATATAT
1 AAATATAT
22600260 TAATAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATAAATTA
Found at i:22600255 original size:16 final size:15
Alignment explanation
Indices: 22600225--22600277 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 15
22600215 TATCATTTAA
*
22600225 ATATATAATTTAAAT
1 ATATATAATTAAAAT
22600240 ATATATAAATTAAAAT
1 ATATAT-AATTAAAAT
*
22600256 ATAT-TAA-TAATAT
1 ATATATAATTAAAAT
*
22600269 ATAAATAAT
1 ATATATAAT
22600278 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 8 0.25
14 5 0.16
15 7 0.22
16 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATATAATTAAAAT
Done.