Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 153 of 185
Found at i:46281669 original size:23 final size:22
Alignment explanation
Indices: 46281614--46281675 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
46281604 ATTTTTATAT
*
46281614 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
46281635 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
46281657 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
46281676 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:46281682 original size:23 final size:23
Alignment explanation
Indices: 46281609--46281683 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
46281599 TTGTTATTTT
* *
46281609 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
46281632 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
46281657 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
46281680 TATA
1 TATA
46281684 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:46281782 original size:3 final size:3
Alignment explanation
Indices: 46281774--46281804 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
46281764 TTCCAATGTC
*
46281774 ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46281805 GTTTATGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:46284953 original size:20 final size:21
Alignment explanation
Indices: 46284912--46284954 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
46284902 AAACATGTTT
*
46284912 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACATTCAAA
*
46284933 ATCTATCATCAAACA-TCAAA
1 ATCTATCAACAAACATTCAAA
46284953 AT
1 AT
46284955 ACACATGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (21 bp):
ATCTATCAACAAACATTCAAA
Found at i:46287789 original size:9 final size:9
Alignment explanation
Indices: 46287777--46287811 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
46287767 AATAAAAATA
46287777 ATAATATAC
1 ATAATATAC
*
46287786 ATAATATAT
1 ATAATATAC
*
46287795 ATAAAATAC
1 ATAATATAC
46287804 ATAATATA
1 ATAATATA
46287812 TACATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAATATAC
Found at i:46287791 original size:30 final size:29
Alignment explanation
Indices: 46287748--46287821 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
46287738 ACGATATTTG
* *
46287748 ATATATACGTAATATGTATAATAA-AAATA
1 ATATATACATAATATATATAA-AATAAATA
*
46287777 ATAATATACATAATATATATAAAATACATA
1 AT-ATATACATAATATATATAAAATAAATA
46287807 ATATATACAT-ATATA
1 ATATATACATAATATA
46287822 AGAAAACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 5 0.12
29 12 0.30
30 23 0.57
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (29 bp):
ATATATACATAATATATATAAAATAAATA
Found at i:46287808 original size:18 final size:18
Alignment explanation
Indices: 46287777--46287813 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
46287767 AATAAAAATA
*
46287777 ATAATATACATAATATAT
1 ATAAAATACATAATATAT
46287795 ATAAAATACATAATATAT
1 ATAAAATACATAATATAT
46287813 A
1 A
46287814 CATATATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAATACATAATATAT
Found at i:46287814 original size:11 final size:11
Alignment explanation
Indices: 46287774--46287821 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
46287764 TATAATAAAA
46287774 ATAATAATATAC
1 ATAAT-ATATAC
46287786 ATAATATAT--
1 ATAATATATAC
46287795 ATAA-A-ATAC
1 ATAATATATAC
46287804 ATAATATATAC
1 ATAATATATAC
46287815 AT-ATATA
1 ATAATATA
46287822 AGAAAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
7 2 0.06
8 1 0.03
9 8 0.25
10 6 0.19
11 10 0.31
12 5 0.16
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATATAC
Found at i:46288019 original size:12 final size:11
Alignment explanation
Indices: 46288002--46288035 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
46287992 ATACACTATT
46288002 ATAATAATGATA
1 ATAATAAT-ATA
46288014 ATAATAAATATA
1 ATAAT-AATATA
46288026 ATAATAATAT
1 ATAATAATAT
46288036 CAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 13 0.62
13 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATAATAATATA
Found at i:46289262 original size:21 final size:21
Alignment explanation
Indices: 46289211--46289267 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
46289201 CAGAGGCATG
*
46289211 GTGGAGGTATGGGACTGTTGTA
1 GTGG-GGTATGGGGCTGTTGTA
46289233 GTGGGGGTATGGGGCTGTTGTA
1 GT-GGGGTATGGGGCTGTTGTA
46289255 GTGGGGTATGGGG
1 GTGGGGTATGGGG
46289268 TTGCTTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 11 0.33
22 20 0.61
23 2 0.06
ACGTcount: A:0.12, C:0.04, G:0.54, T:0.30
Consensus pattern (21 bp):
GTGGGGTATGGGGCTGTTGTA
Found at i:46292203 original size:12 final size:13
Alignment explanation
Indices: 46292186--46292224 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
46292176 TTCAATCATC
46292186 ATCATTTA-ATAT
1 ATCATTTATATAT
*
46292198 ATCATTTATATTT
1 ATCATTTATATAT
46292211 AT-ATTTATATAT
1 ATCATTTATATAT
46292223 AT
1 AT
46292225 TATCCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (13 bp):
ATCATTTATATAT
Found at i:46298885 original size:39 final size:39
Alignment explanation
Indices: 46298839--46298918 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
46298829 ATGGGAAAAG
*
46298839 AAATTTCAGGATACTCGGGCTCGAGAAGTCGCATTGGGA
1 AAATTTCAGGATACTCGGGCTCGAGAAGTCGCATTGAGA
*
46298878 AAATTTCAGGATACTCGGGCTCGAGAAGTCGCCTTGAGA
1 AAATTTCAGGATACTCGGGCTCGAGAAGTCGCATTGAGA
46298917 AA
1 AA
46298919 GAGTCTACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATTTCAGGATACTCGGGCTCGAGAAGTCGCATTGAGA
Found at i:46307960 original size:46 final size:44
Alignment explanation
Indices: 46307893--46308261 Score: 212
Period size: 44 Copynumber: 8.5 Consensus size: 44
46307883 ATTATACAGG
*
46307893 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
46307939 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
46307983 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
46308022 TCTTATCTCCCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
* * *
46308063 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
46308109 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
46308153 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
* * * * **
46308196 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGATTCA-GA
* *
46308240 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
46308262 CAGAGTGGAT
Statistics
Matches: 252, Mismatches: 51, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.10
40 1 0.00
41 29 0.12
42 6 0.02
43 32 0.13
44 89 0.35
45 1 0.00
46 68 0.27
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:46308010 original size:44 final size:46
Alignment explanation
Indices: 46307896--46308223 Score: 182
Period size: 46 Copynumber: 7.5 Consensus size: 46
46307886 ATACAGGTCT
* * * *
46307896 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
46307942 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * * * *
46307986 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * *
46308025 TATCTCCCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
** * * * *
46308066 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* ** * *
46308112 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* * *
46308156 TATCTCCCTGAGATTACAGCGGAGCAGATC---GAA-GACACTATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCA-GATCC
46308199 TATCTCCCTGA-AGTTACAGTGGAGC
1 TATCTCCCTGAGA-TTACAGTGGAGC
46308224 GGATTAAAAT
Statistics
Matches: 222, Mismatches: 41, Indels: 41
0.73 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 3 0.01
41 29 0.13
42 5 0.02
43 26 0.12
44 61 0.27
45 3 0.01
46 66 0.30
47 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:46308414 original size:83 final size:83
Alignment explanation
Indices: 46308264--46308420 Score: 188
Period size: 83 Copynumber: 1.9 Consensus size: 83
46308254 GGTTACAGCA
* * * * * * * *
46308264 GAGTGGATCACATCAAGTCTTATCTCCCTAAATAGTAGTGAAGCAGACGAAAGAAACCGATCTTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
46308329 TCTCCCTAAGTAGTAGTG
66 TCTCCCTAAGTAGTAGTG
* * * * *
46308347 GAGTAGATCGCATCAAGTCTCATCTCTCTAAGCAATAGCGGAGCAGACAAAAGAAACTAATCCTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
*
46308412 TCTCTCTAA
66 TCTCCCTAA
46308421 AGTTGCAGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (83 bp):
GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
TCTCCCTAAGTAGTAGTG
Found at i:46309084 original size:39 final size:39
Alignment explanation
Indices: 46309030--46309107 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46309020 CATTTTCTTT
46309030 TTTATTTATTTTCTTTATTTTGTATATCAAATAGAAAAC
1 TTTATTTATTTTCTTTATTTTGTATATCAAATAGAAAAC
46309069 TTTATTTATTTTCTTTATTTTGTATATCAAATAGAAAAC
1 TTTATTTATTTTCTTTATTTTGTATATCAAATAGAAAAC
46309108 AAAAAAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (39 bp):
TTTATTTATTTTCTTTATTTTGTATATCAAATAGAAAAC
Found at i:46309864 original size:3 final size:3
Alignment explanation
Indices: 46309853--46309940 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
46309843 ATTATTTTGT
* *
46309853 TTA TT- TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
46309898 TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46309941 ATTTATACCT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 60 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:46309873 original size:12 final size:12
Alignment explanation
Indices: 46309858--46309940 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
46309848 TTTGTTTATT
*
46309858 TTATTATTATTA
1 TTATTATTACTA
46309870 TTATTATTTACTA
1 TTATTA-TTACTA
46309883 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
46309898 TTATTGTTAGTA
1 TTATTATTACTA
*
46309910 TTATTACTACTA
1 TTATTATTACTA
46309922 TTATTATTACTA
1 TTATTATTACTA
*
46309934 TCATTAT
1 TTATTAT
46309941 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:46322569 original size:46 final size:44
Alignment explanation
Indices: 46322502--46322870 Score: 212
Period size: 44 Copynumber: 8.5 Consensus size: 44
46322492 ATTATACAGG
*
46322502 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
46322548 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
46322592 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
46322631 TCTTATCTCCCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
* * *
46322672 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
46322718 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
46322762 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
* * * * **
46322805 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGATTCA-GA
* *
46322849 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
46322871 CAGAGTGGAT
Statistics
Matches: 252, Mismatches: 51, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.10
40 1 0.00
41 29 0.12
42 6 0.02
43 32 0.13
44 89 0.35
45 1 0.00
46 68 0.27
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:46322619 original size:44 final size:46
Alignment explanation
Indices: 46322505--46322832 Score: 182
Period size: 46 Copynumber: 7.5 Consensus size: 46
46322495 ATACAGGTCT
* * * *
46322505 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
46322551 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * * * *
46322595 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * *
46322634 TATCTCCCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
** * * * *
46322675 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* ** * *
46322721 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* * *
46322765 TATCTCCCTGAGATTACAGCGGAGCAGATC---GAA-GACACTATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCA-GATCC
46322808 TATCTCCCTGA-AGTTACAGTGGAGC
1 TATCTCCCTGAGA-TTACAGTGGAGC
46322833 GGATTAAAAT
Statistics
Matches: 222, Mismatches: 41, Indels: 41
0.73 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 3 0.01
41 29 0.13
42 5 0.02
43 26 0.12
44 61 0.27
45 3 0.01
46 66 0.30
47 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:46323023 original size:83 final size:83
Alignment explanation
Indices: 46322873--46323029 Score: 188
Period size: 83 Copynumber: 1.9 Consensus size: 83
46322863 GGTTACAGCA
* * * * * * * *
46322873 GAGTGGATCACATCAAGTCTTATCTCCCTAAATAGTAGTGAAGCAGACGAAAGAAACCGATCTTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
46322938 TCTCCCTAAGTAGTAGTG
66 TCTCCCTAAGTAGTAGTG
* * * * *
46322956 GAGTAGATCGCATCAAGTCTCATCTCTCTAAGCAATAGCGGAGCAGACAAAAGAAACTAATCCTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
*
46323021 TCTCTCTAA
66 TCTCCCTAA
46323030 AGTTGCAGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (83 bp):
GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
TCTCCCTAAGTAGTAGTG
Found at i:46324433 original size:3 final size:3
Alignment explanation
Indices: 46324422--46324512 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
46324412 ATTATTTTGT
*
46324422 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * * *
46324467 CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46324513 ATTTATACCT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:46324442 original size:12 final size:12
Alignment explanation
Indices: 46324428--46324512 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
46324418 TTGTTTATTT
*
46324428 TATTATTATTAT
1 TATTATTATTAC
46324440 TATTATTATTTAC
1 TATTATTA-TTAC
46324453 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
46324468 TATTATTGTTAG
1 TATTATTATTAC
*
46324480 TATTATTACTAC
1 TATTATTATTAC
46324492 TATTATTATTAC
1 TATTATTATTAC
*
46324504 TATCATTAT
1 TATTATTAT
46324513 ATTTATACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:46328104 original size:33 final size:33
Alignment explanation
Indices: 46328062--46328128 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
46328052 AATTTCAGGA
*
46328062 TACTCGGGCTCGAGAAGTCGCATTGGGAAAGAG
1 TACTCGGGCTCGAGAAGTCGCATTGAGAAAGAG
*
46328095 TACTCGGGCTCGAGAAGTCGCCTTGAGAAAGAG
1 TACTCGGGCTCGAGAAGTCGCATTGAGAAAGAG
46328128 T
1 T
46328129 CTACTAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.19
Consensus pattern (33 bp):
TACTCGGGCTCGAGAAGTCGCATTGAGAAAGAG
Found at i:46337166 original size:46 final size:44
Alignment explanation
Indices: 46337099--46337467 Score: 212
Period size: 44 Copynumber: 8.5 Consensus size: 44
46337089 ATTATACAGG
*
46337099 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
46337145 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
46337189 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
46337228 TCTTATCTCCCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
* * *
46337269 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
46337315 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
46337359 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
* * * * **
46337402 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGATTCA-GA
* *
46337446 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
46337468 CAGAGTGGAT
Statistics
Matches: 252, Mismatches: 51, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.10
40 1 0.00
41 29 0.12
42 6 0.02
43 32 0.13
44 89 0.35
45 1 0.00
46 68 0.27
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:46337216 original size:44 final size:46
Alignment explanation
Indices: 46337102--46337429 Score: 182
Period size: 46 Copynumber: 7.5 Consensus size: 46
46337092 ATACAGGTCT
* * * *
46337102 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
46337148 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * * * *
46337192 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * *
46337231 TATCTCCCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
** * * * *
46337272 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* ** * *
46337318 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* * *
46337362 TATCTCCCTGAGATTACAGCGGAGCAGATC---GAA-GACACTATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCA-GATCC
46337405 TATCTCCCTGA-AGTTACAGTGGAGC
1 TATCTCCCTGAGA-TTACAGTGGAGC
46337430 GGATTAAAAT
Statistics
Matches: 222, Mismatches: 41, Indels: 41
0.73 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 3 0.01
41 29 0.13
42 5 0.02
43 26 0.12
44 61 0.27
45 3 0.01
46 66 0.30
47 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:46337620 original size:83 final size:83
Alignment explanation
Indices: 46337470--46337626 Score: 188
Period size: 83 Copynumber: 1.9 Consensus size: 83
46337460 GGTTACAGCA
* * * * * * * *
46337470 GAGTGGATCACATCAAGTCTTATCTCCCTAAATAGTAGTGAAGCAGACGAAAGAAACCGATCTTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
46337535 TCTCCCTAAGTAGTAGTG
66 TCTCCCTAAGTAGTAGTG
* * * * *
46337553 GAGTAGATCGCATCAAGTCTCATCTCTCTAAGCAATAGCGGAGCAGACAAAAGAAACTAATCCTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
*
46337618 TCTCTCTAA
66 TCTCCCTAA
46337627 AGTTGCAGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (83 bp):
GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
TCTCCCTAAGTAGTAGTG
Found at i:46347170 original size:21 final size:22
Alignment explanation
Indices: 46347141--46347187 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
46347131 CAGAAGGAGT
*
46347141 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
46347163 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
46347184 GAGT
1 GAGT
46347188 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:46350806 original size:20 final size:20
Alignment explanation
Indices: 46350783--46350827 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
46350773 TTTTTTTTTT
*
46350783 TTATTTT-TTATATTTTAAAA
1 TTATTTTGTTA-AATTTAAAA
*
46350803 TTATTTTGTTAAATTTAAAT
1 TTATTTTGTTAAATTTAAAA
46350823 TTATT
1 TTATT
46350828 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATTTTGTTAAATTTAAAA
Found at i:46351616 original size:17 final size:17
Alignment explanation
Indices: 46351594--46351627 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46351584 ATCCACTAAT
*
46351594 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
46351611 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
46351628 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:46353227 original size:14 final size:14
Alignment explanation
Indices: 46353204--46353237 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
46353194 TCTATGGATT
46353204 TAAG-AAAATAATC
1 TAAGTAAAATAATC
46353217 TAAGTAAAATAATC
1 TAAGTAAAATAATC
46353231 TAAGTAA
1 TAAGTAA
46353238 TTGTAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (14 bp):
TAAGTAAAATAATC
Found at i:46355049 original size:17 final size:17
Alignment explanation
Indices: 46355027--46355060 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46355017 ATCCACTAAT
*
46355027 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
46355044 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
46355061 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:46356097 original size:14 final size:14
Alignment explanation
Indices: 46356078--46356104 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46356068 TTTTAACCTT
46356078 AATCTTAAATTTTG
1 AATCTTAAATTTTG
46356092 AATCTTAAATTTT
1 AATCTTAAATTTT
46356105 AAACCCCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AATCTTAAATTTTG
Found at i:46358893 original size:4 final size:4
Alignment explanation
Indices: 46358884--46358910 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46358874 GTTTTATGTA
46358884 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
46358911 CCATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:46361797 original size:41 final size:41
Alignment explanation
Indices: 46361702--46361790 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
46361692 CGGCGTTTTG
* * * *
46361702 AACTGAGCAATTGTGGCGTTTTCATGCAAAACGCCGCTAAA
1 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
46361743 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
1 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
46361784 AACTGAG
1 AACTGAG
46361791 ATATAGTGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (41 bp):
AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
Found at i:46361816 original size:41 final size:41
Alignment explanation
Indices: 46361702--46361824 Score: 115
Period size: 41 Copynumber: 3.0 Consensus size: 41
46361692 CGGCGTTTTG
* * * * * *
46361702 AACTGAGCAATTGTGGCGTTTTCATGCAAAACGCCGCTAAA
1 AACTGAGCAATAGTAGTGCTTTCAGGCAAAACGCCGCAAAA
* *
46361743 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
1 AACTGAGCAATAGTAGTGCTTTCAGGCAAAACGCCGCAAAA
* * *
46361784 AACTGAG-ATATAGTGGTGCTTT-AGGTCCAAACGCCACAAAA
1 AACTGAGCA-ATAGTAGTGCTTTCAGG-CAAAACGCCGCAAAA
46361825 GGTTGAGCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
40 3 0.04
41 68 0.96
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (41 bp):
AACTGAGCAATAGTAGTGCTTTCAGGCAAAACGCCGCAAAA
Found at i:46362417 original size:29 final size:29
Alignment explanation
Indices: 46362381--46362436 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
46362371 AAAATATGAA
46362381 GCCTAACCCCTAAATCATAACCCATGACC
1 GCCTAACCCCTAAATCATAACCCATGACC
*
46362410 GCCTAACCCCTAGATCATAACCCATGA
1 GCCTAACCCCTAAATCATAACCCATGA
46362437 TCTAAACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.39, G:0.09, T:0.18
Consensus pattern (29 bp):
GCCTAACCCCTAAATCATAACCCATGACC
Found at i:46362600 original size:37 final size:36
Alignment explanation
Indices: 46362558--46362646 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
46362548 CCTATAAACC
* *
46362558 TTTTAAACCCTAAAACTCTAAACTCTAAAAACTAAA
1 TTTTAAACCCTAAAACCCTAAACTATAAAAACTAAA
* * * * **
46362594 TCTTTAAACTCTTATACCCTAAATTATAAACCCTAAA
1 T-TTTAAACCCTAAAACCCTAAACTATAAAAACTAAA
46362631 TTTGTAAACCCTAAAA
1 TTT-TAAACCCTAAAA
46362647 ATAAATTTCA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.31
Consensus pattern (36 bp):
TTTTAAACCCTAAAACCCTAAACTATAAAAACTAAA
Found at i:46362628 original size:14 final size:15
Alignment explanation
Indices: 46362609--46362645 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
46362599 AAACTCTTAT
46362609 ACCCTAAA-TTATAA
1 ACCCTAAATTTATAA
*
46362623 ACCCTAAATTTGTAA
1 ACCCTAAATTTATAA
46362638 ACCCTAAA
1 ACCCTAAA
46362646 AATAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (15 bp):
ACCCTAAATTTATAA
Found at i:46363773 original size:20 final size:20
Alignment explanation
Indices: 46363728--46363779 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
46363718 CCCCACCCAA
*
46363728 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
46363748 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
*
46363767 ATTTCCCCGAATC
1 ATTTCCCCAAATC
46363780 AAAATTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:46366302 original size:23 final size:23
Alignment explanation
Indices: 46366271--46366321 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
46366261 AACATTAATC
* *
46366271 AAATGTATGAATTGCAGCACTTT
1 AAATATATGAATTGCAGCACTTA
*
46366294 AAATATATGAATTGCAGCCCTTA
1 AAATATATGAATTGCAGCACTTA
46366317 AAATA
1 AAATA
46366322 AACTTGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (23 bp):
AAATATATGAATTGCAGCACTTA
Found at i:46377040 original size:18 final size:19
Alignment explanation
Indices: 46377017--46377055 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
46377007 ATATATATAG
46377017 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
46377035 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
46377054 AT
1 AT
46377056 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:46377405 original size:39 final size:38
Alignment explanation
Indices: 46377295--46377429 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
46377285 GACCTCGAGT
* * *
46377295 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ATATTACTTCGGCTAG-TC
** ** *
46377336 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAA-TATTACTTCGGCTAGTC
* *
46377374 CGATGAGACACTGGGTGTCAAGTATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAA-TATTACTTCG-GCTAGTC
*
46377413 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
46377430 CCATATTGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATATTACTTCGGCTAGTC
Found at i:46377573 original size:18 final size:19
Alignment explanation
Indices: 46377552--46377592 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
46377542 AATGAAATGA
46377552 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
46377570 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
46377589 GAAA
1 GAAA
46377593 ACATGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:46381728 original size:120 final size:120
Alignment explanation
Indices: 46381515--46381739 Score: 432
Period size: 120 Copynumber: 1.9 Consensus size: 120
46381505 TCTAAATGGG
*
46381515 CATATAATTCACTTGATGCAAAAGATGATTTAAAAGTATAATTCTAAGGAGCTTAAATACTGTAA
1 CATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAGGAGCTTAAATACTGTAA
*
46381580 ATTTTGCATGTAATGAGGTATATCATTAATGTTGTTGATGACGGCAGTGTTTATT
66 ATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGATGACGGCAGTGTTTATT
46381635 CATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAGGAGCTTAAATACTGTAA
1 CATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAGGAGCTTAAATACTGTAA
46381700 ATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGATG
66 ATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGATG
46381740 CATGTAAATT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (120 bp):
CATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAGGAGCTTAAATACTGTAA
ATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGATGACGGCAGTGTTTATT
Found at i:46381754 original size:13 final size:13
Alignment explanation
Indices: 46381738--46381783 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
46381728 ATGTTGTTGA
46381738 TGCATGTAAATTC
1 TGCATGTAAATTC
46381751 TGCATGTAAA---
1 TGCATGTAAATTC
*
46381761 TAC-TGTAAATTC
1 TGCATGTAAATTC
46381773 TGCATGTAAAT
1 TGCATGTAAAT
46381784 CGGCATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
12 2 0.07
13 17 0.63
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (13 bp):
TGCATGTAAATTC
Found at i:46381770 original size:22 final size:22
Alignment explanation
Indices: 46381742--46381783 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
46381732 TGTTGATGCA
46381742 TGTAAATTCTGCATGTAAATAC
1 TGTAAATTCTGCATGTAAATAC
46381764 TGTAAATTCTGCATGTAAAT
1 TGTAAATTCTGCATGTAAAT
46381784 CGGCATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TGTAAATTCTGCATGTAAATAC
Found at i:46381856 original size:83 final size:83
Alignment explanation
Indices: 46381757--46381916 Score: 320
Period size: 83 Copynumber: 1.9 Consensus size: 83
46381747 ATTCTGCATG
46381757 TAAATACTGTAAATTCTGCATGTAAATCGGCATATAATTCACTTGATGCAAAAGATGATTCAAAA
1 TAAATACTGTAAATTCTGCATGTAAATCGGCATATAATTCACTTGATGCAAAAGATGATTCAAAA
46381822 GTATAATTCTAAGGAGCT
66 GTATAATTCTAAGGAGCT
46381840 TAAATACTGTAAATTCTGCATGTAAATCGGCATATAATTCACTTGATGCAAAAGATGATTCAAAA
1 TAAATACTGTAAATTCTGCATGTAAATCGGCATATAATTCACTTGATGCAAAAGATGATTCAAAA
46381905 GTATAATTCTAA
66 GTATAATTCTAA
46381917 ATGGTACATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (83 bp):
TAAATACTGTAAATTCTGCATGTAAATCGGCATATAATTCACTTGATGCAAAAGATGATTCAAAA
GTATAATTCTAAGGAGCT
Found at i:46386314 original size:21 final size:21
Alignment explanation
Indices: 46386288--46386335 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
46386278 TCAACTTATA
46386288 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
46386309 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
46386330 GCGGAG
1 GCGGAG
46386336 CAGAACAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:46386695 original size:22 final size:22
Alignment explanation
Indices: 46386670--46386733 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
46386660 AGTCCTAGTC
46386670 TTTAGCGGCGTTTTTTAGAACT
1 TTTAGCGGCGTTTTTTAGAACT
* *
46386692 TTTAGCGACGTTTTTTAGAATT
1 TTTAGCGGCGTTTTTTAGAACT
46386714 TTTAGCGGCGTTTTTTAGAA
1 TTTAGCGGCGTTTTTTAGAA
46386734 AAGCGCCGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (22 bp):
TTTAGCGGCGTTTTTTAGAACT
Found at i:46386793 original size:43 final size:43
Alignment explanation
Indices: 46386714--46386850 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
46386704 TTTTAGAATT
* * * *
46386714 TTTAGCGGCGTTTTTTAGAAAAGCGCCGTTATAAGTCTTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * * *
46386757 TTTAGTGGCATTTTTTATATAAGTGCCGCTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* *
46386800 TTTAACGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTAGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
46386843 TTTAGCGG
1 TTTAGCGG
46386851 TGTTACATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
Found at i:46387492 original size:21 final size:21
Alignment explanation
Indices: 46387466--46387505 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46387456 CTTAGATATG
46387466 AAAAAT-ATTAGTTTGTAAAAT
1 AAAAATGATTAGTTT-TAAAAT
*
46387487 AAAAATGGTTAGTTTTAAA
1 AAAAATGATTAGTTTTAAA
46387506 CATAGGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAAATGATTAGTTTTAAAAT
Found at i:46390121 original size:16 final size:16
Alignment explanation
Indices: 46390097--46390127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46390087 TCAAGGTTAG
*
46390097 AAAATTCAATTAATTA
1 AAAAATCAATTAATTA
46390113 AAAAATCAATTAATT
1 AAAAATCAATTAATT
46390128 TACTTGACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATCAATTAATTA
Found at i:46390312 original size:31 final size:29
Alignment explanation
Indices: 46390243--46390316 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
46390233 ACAAAACGAT
* **
46390243 AACATAAGTGATTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATGGCA
46390272 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAATGTAACAT--GGCA
*
46390303 AACAAAAGTGACTA
1 AACATAAGTGACTA
46390317 TTTTGATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATGGCA
Found at i:46393222 original size:26 final size:24
Alignment explanation
Indices: 46393187--46393234 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
46393177 AAAATATAAT
*
46393187 TATTTGTATATTTTGTTCTGTATTTA
1 TATTTGTATAATTT-TT-TGTATTTA
*
46393213 TATTTTTATAATTTTTTGTATT
1 TATTTGTATAATTTTTTGTATT
46393235 GTTTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (24 bp):
TATTTGTATAATTTTTTGTATTTA
Found at i:46393252 original size:21 final size:21
Alignment explanation
Indices: 46393215--46393255 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46393205 TGTATTTATA
*
46393215 TTTTTATAATTTTTTGTATTG
1 TTTTTATAATTTATTGTATTG
46393236 TTTTT-TAATTATATTGTATT
1 TTTTTATAATT-TATTGTATT
46393256 TAAAATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTTATAATTTATTGTATTG
Found at i:46393572 original size:16 final size:16
Alignment explanation
Indices: 46393551--46393590 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
46393541 GGGTGTGTGG
46393551 GATAGGTAGAAATATC
1 GATAGGTAGAAATATC
46393567 GATAGGTAGAAATATC
1 GATAGGTAGAAATATC
46393583 GATAGGTA
1 GATAGGTA
46393591 TGGTTTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (16 bp):
GATAGGTAGAAATATC
Found at i:46394563 original size:22 final size:22
Alignment explanation
Indices: 46394538--46394582 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
46394528 GTCAAATCAT
46394538 ATTAAATGAATTTATAATTCAA
1 ATTAAATGAATTTATAATTCAA
*
46394560 ATTAAATGAATTTATACTTCAA
1 ATTAAATGAATTTATAATTCAA
46394582 A
1 A
46394583 AATTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTAAATGAATTTATAATTCAA
Found at i:46401479 original size:26 final size:25
Alignment explanation
Indices: 46401418--46401513 Score: 83
Period size: 26 Copynumber: 3.9 Consensus size: 25
46401408 ATAGGATAAT
* **
46401418 CTTAAAATAATTAATATATAAAATAA
1 CTTAAAATAA-TAATATACAAAGCAA
46401444 CTT--AA-AATAATATACAAAGCAA
1 CTTAAAATAATAATATACAAAGCAA
* *
46401466 CTTAACATAGATAATTTACAAAGCAA
1 CTTAAAATA-ATAATATACAAAGCAA
* *
46401492 GTTAAAATAATCATATA-AAAGC
1 CTTAAAATAATAATATACAAAGC
46401514 TTAATGCAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
22 15 0.26
23 2 0.04
24 8 0.14
25 7 0.12
26 25 0.44
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (25 bp):
CTTAAAATAATAATATACAAAGCAA
Found at i:46406953 original size:17 final size:18
Alignment explanation
Indices: 46406921--46406954 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46406911 AATTAAAAAA
46406921 ATTTAAAATAAAATAATG
1 ATTTAAAATAAAATAATG
*
46406939 ATTTAAACT-AAATAAT
1 ATTTAAAATAAAATAAT
46406955 ATGTATACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
ATTTAAAATAAAATAATG
Found at i:46422098 original size:48 final size:48
Alignment explanation
Indices: 46422027--46422122 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
46422017 CTTCAGCTTA
*
46422027 TCCCACTACATCAAGATATGCTTCCGCAAGTCTCAGCTTTGGCTCTTC
1 TCCCACTACATCAAGATATGCTTCCACAAGTCTCAGCTTTGGCTCTTC
*
46422075 TCCCACTACATCAAGATATGCTTCCACAAGTCTCAGCTTTGGTTCTTC
1 TCCCACTACATCAAGATATGCTTCCACAAGTCTCAGCTTTGGCTCTTC
46422123 CGAATCCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (48 bp):
TCCCACTACATCAAGATATGCTTCCACAAGTCTCAGCTTTGGCTCTTC
Found at i:46423833 original size:18 final size:17
Alignment explanation
Indices: 46423796--46423847 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
46423786 CTAAAGGACG
* *
46423796 ACAAATAATCGATAAAT
1 ACAAATAAGCAATAAAT
46423813 ACAAATAAGCAATACAAT
1 ACAAATAAGCAATA-AAT
*
46423831 ACACATGAGAGCAATAA
1 ACAAAT-A-AGCAATAA
46423848 TCTTACATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 8 0.28
19 2 0.07
20 7 0.24
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (17 bp):
ACAAATAAGCAATAAAT
Found at i:46427016 original size:103 final size:103
Alignment explanation
Indices: 46426821--46427264 Score: 773
Period size: 103 Copynumber: 4.3 Consensus size: 103
46426811 GATTCCCCAA
* * *
46426821 TTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGT
1 TTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATCTTTGAAATG-AAAAGGGGGTTGCTATGT
46426885 GCTGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
64 GCTGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
46426925 TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
1 TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
46426990 TGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
66 TGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
46427028 TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
1 TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
46427093 TGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
66 TGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
46427131 TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
1 TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
* * * *
46427196 TGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGA
66 TGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
* * *
46427234 TTCAGTGCTGGTGCTAAGTGCGAGATCCACC
1 TTCATTGGTGGTGCTAAGTGCGATATCCACC
46427265 AATAACGGTT
Statistics
Matches: 329, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
103 287 0.87
104 41 0.12
105 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (103 bp):
TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGGTTGCTATGTGC
TGATTCCCCCCAGGGGTTGCTAAGTGCAGATTTCCCGG
Found at i:46430281 original size:13 final size:13
Alignment explanation
Indices: 46430265--46430289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46430255 TTCTCCTTCC
46430265 CTTTCCCCTACCT
1 CTTTCCCCTACCT
46430278 CTTTCCCCTACC
1 CTTTCCCCTACC
46430290 CCTTCCCCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.56, G:0.00, T:0.36
Consensus pattern (13 bp):
CTTTCCCCTACCT
Found at i:46433866 original size:41 final size:41
Alignment explanation
Indices: 46433608--46433851 Score: 355
Period size: 41 Copynumber: 6.0 Consensus size: 41
46433598 AAATTATTCA
46433608 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* * * *
46433649 GACTATATGTCTAGCAGGATAAATGTCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
46433690 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
* * * *
46433731 GACTATATGTCTAGCAGGATAAATGTCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
*
46433772 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATC-G
* * * *
46433814 G-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAAT
46433852 TAAACTATAA
Statistics
Matches: 182, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 180 0.99
42 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
Found at i:46433878 original size:41 final size:41
Alignment explanation
Indices: 46433618--46433886 Score: 198
Period size: 41 Copynumber: 6.6 Consensus size: 41
46433608 GACTATACGT
* ** * * *
46433618 CTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* * * * ** * * *
46433659 CTAGCAGGATAAATGTCGGTGAATTGAATCGGACTATACGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* ** * * *
46433700 CTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* * * * ** * * *
46433741 CTAGCAGGATAAATGTCGGTGAATTGAATCGGACTATACGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
**
46433782 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* *
46433823 CTAGCAGGCTAAGTGCCGGTGAACTGAATTAAACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
* *
46433864 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
46433887 TCTGTTTAAA
Statistics
Matches: 200, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 1 0.00
41 199 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAAACTACAAGC
Found at i:46433880 original size:82 final size:82
Alignment explanation
Indices: 46433608--46433851 Score: 400
Period size: 82 Copynumber: 3.0 Consensus size: 82
46433598 AAATTATTCA
46433608 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGTCTAGCAGGATAAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGTCTAGCAGGATAAAT
46433673 GTCGGTGAATTGAATCG
66 GTCGGTGAATTGAATCG
46433690 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGTCTAGCAGGATAAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGTCTAGCAGGATAAAT
46433755 GTCGGTGAATTGAATCG
66 GTCGGTGAATTGAATCG
* * * * * *
46433772 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTACAAGCCTAGCAGGCTAAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATC-GGACTATATGTCTAGCAGGATAAA
* *
46433836 TGCCGGTGAACTGAAT
65 TGTCGGTGAATTGAAT
46433852 TAAACTATAA
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 151 0.99
83 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (82 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGTCTAGCAGGATAAAT
GTCGGTGAATTGAATCG
Found at i:46433886 original size:123 final size:123
Alignment explanation
Indices: 46433609--46433887 Score: 337
Period size: 123 Copynumber: 2.3 Consensus size: 123
46433599 AATTATTCAG
* * * *
46433609 ACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATATGTCTAGCAGGATAAATG
1 ACTATAAGCCTAGCAGGATAAGTGCCGGTGAATTGAATCGGACTATACGTCTAGCAGGATAAATG
* * * * * * **
46433674 TCGGTGAATTGAATCGGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCGG
66 CCGGTGAACTGAATCGGACTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAA
* * * * * *
46433732 ACTATATGTCTAGCAGGATAAATGTCGGTGAATTGAATCGGACTATACGTCTAGCAGGCTAAGTG
1 ACTATAAGCCTAGCAGGATAAGTGCCGGTGAATTGAATCGGACTATACGTCTAGCAGGATAAATG
*
46433797 CCGGTGAACTGAATCAGG-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATTAA
66 CCGGTGAACTGAATC-GGACTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAA
* *
46433855 ACTATAAGCCTATCAGG-TGAAGTGCCAGTGAAT
1 ACTATAAGCCTAGCAGGAT-AAGTGCCGGTGAAT
46433888 CTGTTTAAAT
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
122 1 0.01
123 129 0.98
124 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (123 bp):
ACTATAAGCCTAGCAGGATAAGTGCCGGTGAATTGAATCGGACTATACGTCTAGCAGGATAAATG
CCGGTGAACTGAATCGGACTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAA
Found at i:46435729 original size:32 final size:33
Alignment explanation
Indices: 46435693--46435779 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
46435683 AACTTTTCTG
* * *
46435693 GAAAATATTTT-CAGGAAATCTACCAAACAGCA
1 GAAAATATTTTACAGCAAATCAACCAAACACCA
*
46435725 GAAAATATTTTACA-CAAACTCAATCAAACACCA
1 GAAAATATTTTACAGCAAA-TCAACCAAACACCA
* *
46435758 GAAAATATTTTCCAGTAAATCA
1 GAAAATATTTTACAGCAAATCA
46435780 TTTTACAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
32 14 0.30
33 29 0.63
34 3 0.07
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCAACCAAACACCA
Found at i:46435813 original size:34 final size:35
Alignment explanation
Indices: 46435759--46435825 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46435749 CAAACACCAG
*
46435759 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
46435794 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46435826 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46437311 original size:28 final size:25
Alignment explanation
Indices: 46437279--46437342 Score: 85
Period size: 24 Copynumber: 2.5 Consensus size: 25
46437269 GTAAAAAATA
46437279 ACCAAAATGATATAACTTTTTTTTATTT
1 ACCAAAAT-ATATAA--TTTTTTTATTT
*
46437307 ACCAAAATAT-TTATTTTTTTATTT
1 ACCAAAATATATAATTTTTTTATTT
46437331 ACCAAAATATAT
1 ACCAAAATATAT
46437343 CAAAAAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 21 0.62
25 1 0.03
26 2 0.06
27 2 0.06
28 8 0.24
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (25 bp):
ACCAAAATATATAATTTTTTTATTT
Found at i:46437504 original size:19 final size:19
Alignment explanation
Indices: 46437482--46437587 Score: 90
Period size: 20 Copynumber: 5.4 Consensus size: 19
46437472 AAAGAAGGAA
46437482 AGAAAAAGGAAAGGAGAAG
1 AGAAAAAGGAAAGGAGAAG
* *
46437501 AGAAAAAAAGAAAGAAAGAAG
1 AG-AAAAAGGAAAG-GAGAAG
*
46437522 A-AGAAAAGGAAATGAGAAG
1 AGA-AAAAGGAAAGGAGAAG
* *
46437541 A-AAAAAAGAAAGAAAGAAGG
1 AGAAAAAGGAAAG-GAGAA-G
*
46437561 AAAGAAAAGGAAAGGAGAAG
1 AGA-AAAAGGAAAGGAGAAG
46437581 AGAAAAA
1 AGAAAAA
46437588 AAAAGAAGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.12
19 18 0.26
20 23 0.33
21 11 0.16
22 9 0.13
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (19 bp):
AGAAAAAGGAAAGGAGAAG
Found at i:46437529 original size:40 final size:42
Alignment explanation
Indices: 46437462--46437589 Score: 192
Period size: 40 Copynumber: 3.1 Consensus size: 42
46437452 AAGGAGAGGG
46437462 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAG--AAAGAAGGAAAG-AAAAGGAAAGGAGAAGAGAAAA
*
46437507 AAAGAAAGAAAGAA-G-AAGAAAAGGAAATGAG-A-AGAAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
46437545 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
46437587 AAA
1 AAA
46437590 AAGAAGAAGA
Statistics
Matches: 77, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
38 20 0.26
39 2 0.03
40 27 0.35
41 4 0.05
42 10 0.13
43 6 0.08
45 8 0.10
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (42 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
Found at i:46437593 original size:40 final size:40
Alignment explanation
Indices: 46437462--46437626 Score: 187
Period size: 40 Copynumber: 4.1 Consensus size: 40
46437452 AAGGAGAGGG
46437462 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAG--AAAGAA-GAAAG-AAAAGGAAAGGAGAAGAG-AAA
*
46437507 AAAGAAAGAAAGAAG-AAGAAAAGGAAATGAGAAGA-AAA
1 AAAGAAAGAAAGAAGAAAGAAAAGGAAAGGAGAAGAGAAA
46437545 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
1 AAAGAAAGAAAGAA-GAAAGAAAAGGAAAGGAGAAGAGAAA
** * *
46437586 AAA-AAAG-AAGAAGAAGAGGGAAGG-AAGGAAAAAAGAAA
1 AAAGAAAGAAAGAAGAA-AGAAAAGGAAAGGAGAAGAGAAA
46437624 AAA
1 AAA
46437627 AAGTAATTTT
Statistics
Matches: 110, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
38 35 0.32
39 12 0.11
40 39 0.35
41 9 0.08
42 1 0.01
43 6 0.05
45 8 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (40 bp):
AAAGAAAGAAAGAAGAAAGAAAAGGAAAGGAGAAGAGAAA
Found at i:46437608 original size:28 final size:28
Alignment explanation
Indices: 46437480--46437624 Score: 78
Period size: 28 Copynumber: 5.3 Consensus size: 28
46437470 AAAAAGAAGG
46437480 AAAGAAAAAGGAAAGGAGAA-G-AGAAAA
1 AAAG-AAAAGGAAAGGAGAAGGAAGAAAA
* *
46437507 AAAG-AAA-GAAAGAAGAAGAAAAGGAAATGA
1 AAAGAAAAGGAAAGGAGAAG-GAA-GAAA--A
* * **
46437537 GAAGAAAA--AAA-GA-AAGAAAGAAGG
1 AAAGAAAAGGAAAGGAGAAGGAAGAAAA
46437561 AAAGAAAAGGAAAGGAGAAGAGAA-AAAA
1 AAAGAAAAGGAAAGGAGAAG-GAAGAAAA
*
46437589 AAAGAAGAA-GAAGAGG-GAAGGAAGGAAA
1 AAAGAA-AAGGAA-AGGAGAAGGAAGAAAA
46437617 AAAGAAAA
1 AAAGAAAA
46437625 AAAAGTAATT
Statistics
Matches: 92, Mismatches: 11, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
24 16 0.17
25 3 0.03
26 6 0.07
27 15 0.16
28 34 0.37
29 8 0.09
30 7 0.08
31 3 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.01
Consensus pattern (28 bp):
AAAGAAAAGGAAAGGAGAAGGAAGAAAA
Found at i:46437622 original size:80 final size:81
Alignment explanation
Indices: 46437462--46437627 Score: 225
Period size: 80 Copynumber: 2.0 Consensus size: 81
46437452 AAGGAGAGGG
*
46437462 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAA
1 AAAGAAAG-AAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGAAAAAAAAAAAGAAAGAAGAAGAA
46437527 AAGGAAATGAGAAGAAAA
65 AAGGAAA-GAGAAGAAAA
*
46437545 AAAGAAAG-AAAGAAGGAAAG-AAAAGGAAAGGAGAAGAGAAAAAAAAAGAAG-AAGAAGAGGGA
1 AAAGAAAGAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGAAAAAAAAA-AAGAAAGAAGA-AGA
46437607 AGGAAGGAAA-A-AAGAAAA
64 A--AAGGAAAGAGAAGAAAA
46437625 AAA
1 AAA
46437628 AGTAATTTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
80 43 0.56
81 19 0.25
83 15 0.19
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (81 bp):
AAAGAAAGAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGAAAAAAAAAAAGAAAGAAGAAGAAA
AGGAAAGAGAAGAAAA
Found at i:46437625 original size:34 final size:36
Alignment explanation
Indices: 46437470--46437623 Score: 140
Period size: 35 Copynumber: 4.2 Consensus size: 36
46437460 GGAAAGAAAG
* * * *
46437470 AAAAAGAAGGAAAGAAAAAGGAAAGGAGAA-G-AGAA
1 AAAAAGAAAGAAAGAAGAAGAAAAGGA-AAGGAAGGA
*
46437505 AAAAAGAAAGAAAGAAGAAGAAAAGGAAATGAGAAGAA
1 AAAAAGAAAGAAAGAAGAAGAAAAGGAAA-G-GAAGGA
46437543 AAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGG-A-GA
1 AAAAAGAAAGAAAGAA-G-AAGAAAAGGAAAGGAAGGA
* *
46437579 AGAGAAA-AAA-AAAGAAGAAGAAGAGGGAAGGAAGGA
1 A-A-AAAGAAAGAAAGAAGAAGAAAAGGAAAGGAAGGA
46437615 AAAAAGAAA
1 AAAAAGAAA
46437624 AAAAAGTAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
34 17 0.17
35 30 0.29
36 11 0.11
37 6 0.06
38 24 0.24
39 2 0.02
40 12 0.12
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (36 bp):
AAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAAGGA
Found at i:46440730 original size:18 final size:17
Alignment explanation
Indices: 46440707--46440749 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
46440697 ATCCCAATGA
46440707 TCGCCACTACATTCTTCT
1 TCGCCAC-ACATTCTTCT
*
46440725 TCGCCAGCACCTTCTTCT
1 TCGCCA-CACATTCTTCT
*
46440743 TCACCAC
1 TCGCCAC
46440750 CAACCATGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.16, C:0.44, G:0.07, T:0.33
Consensus pattern (17 bp):
TCGCCACACATTCTTCT
Found at i:46441606 original size:3 final size:3
Alignment explanation
Indices: 46441598--46441635 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
46441588 TCTTAGTACT
46441598 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
46441636 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:46441719 original size:19 final size:21
Alignment explanation
Indices: 46441695--46441733 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
46441685 ACTAAAACAA
*
46441695 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
46441714 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
46441734 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:46441904 original size:27 final size:27
Alignment explanation
Indices: 46441874--46441931 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
46441864 CCAATCAGTA
* *
46441874 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCACCAATAGTTT
*
46441901 TGGCACCTTTGGTGCCACCAATAGTTT
1 TGGCACCATTGGTGCCACCAATAGTTT
46441928 TGGC
1 TGGC
46441932 GTGACCAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.31
Consensus pattern (27 bp):
TGGCACCATTGGTGCCACCAATAGTTT
Found at i:46442020 original size:21 final size:20
Alignment explanation
Indices: 46441980--46442021 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
46441970 GTTTTTTTAT
46441980 ATATTTTGGTAAATAAAAAA
1 ATATTTTGGTAAATAAAAAA
46442000 ATATTTTGGTAAATAAAAAA
1 ATATTTTGGTAAATAAAAAA
46442020 AT
1 AT
46442022 TATAACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
ATATTTTGGTAAATAAAAAA
Found at i:46453364 original size:23 final size:24
Alignment explanation
Indices: 46453325--46453370 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
46453315 ATTAATTAAT
*
46453325 TAATTAAAATTAAATTAAGTTTTG
1 TAATTAAAATTAAATTAAATTTTG
*
46453349 TAATTAAAATT-TATTAAATTTT
1 TAATTAAAATTAAATTAAATTTT
46453371 AGGGTTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TAATTAAAATTAAATTAAATTTTG
Found at i:46453714 original size:33 final size:33
Alignment explanation
Indices: 46453672--46453738 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
46453662 TAATTTCGAG
46453672 TTGACGTTTCTAAGCAAATAGTATAAAATCGCT
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCT
*
46453705 TTGACGTTTCTAGGCAAATAGTATAAAATCGCT
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCT
46453738 T
1 T
46453739 CTACAAGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGACGTTTCTAAGCAAATAGTATAAAATCGCT
Found at i:46453863 original size:158 final size:158
Alignment explanation
Indices: 46453547--46453863 Score: 451
Period size: 158 Copynumber: 2.0 Consensus size: 158
46453537 TAATTTCGAG
*
46453547 TTGACGGTTCTGAGCAAATAGTATAAAAACGCTACAAGCAGGATGCTATATGCGAAGAATTTGTG
1 TTGACGGTTCTGAGCAAATAGTATAAAAACGCTACAAGCAGGATGCTATATGAGAAGAATTTGTG
* * * *
46453612 AAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTGAAAGAAATAATTTCGAGTTGAC
66 AAATCGCGCCCACCTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGAC
*
46453677 GTTTCTAAGCAAATAGTATAAAATCGCT
131 GTTTCTAAGCAAATAGTATAAAAACGCT
* * * * *
46453705 TTGACGTTTCT-AGGCAAATAGTATAAAATCGCTTCTA-CAAGGATGCTTTATGAGAAGAATTTG
1 TTGACGGTTCTGA-GCAAATAGTATAAAAACGCTACAAGC-AGGATGCTATATGAGAAGAATTTG
* * *
46453768 TGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTAGGTCCT-AAAAAAATTATTTTGAGTTG
64 TGAAATCGCGCCCACCTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTG
*
46453832 ACGTTTCTGAGCAAATAGTATAAAAAACGCT
129 ACGTTTCTAAGCAAATAGTAT-AAAAACGCT
46453863 T
1 T
46453864 CAAGCAGGAT
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
157 39 0.28
158 102 0.72
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (158 bp):
TTGACGGTTCTGAGCAAATAGTATAAAAACGCTACAAGCAGGATGCTATATGAGAAGAATTTGTG
AAATCGCGCCCACCTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGAC
GTTTCTAAGCAAATAGTATAAAAACGCT
Found at i:46453926 original size:125 final size:122
Alignment explanation
Indices: 46453705--46454047 Score: 414
Period size: 125 Copynumber: 2.8 Consensus size: 122
46453695 TAAAATCGCT
46453705 TTGACGTTTCT-AGGCAAATAGTATAAAATCGCTTCTACAAGGATGCTTTATGAGAAGAATTTGT
1 TTGACGTTTCTGA-GCAAATAGTATAAAA-CGCTTCTAC-AGGATGCTTTATGAGAAGAATTTGT
* * *
46453769 GAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTAGGTCCT-AAAAAAATTATTTTGAG
63 GAAAT-GCGCCCTCGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAG
* *
46453829 TTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATT-TGAGAAGAATTTC
1 TTGACGTTTCTGAGCAAATAGTAT--AAAACGCTTCTA-CAGGATGCT-TTATGAGAAGAATTTG
* * *
46453893 TGAAACTGCGCCCTCGTGGACGCACTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTCGAG
62 TGAAA-TGCGCCCTCGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAG
* * *
46453955 TTGACGTTTTTGAGTAAATAGTAT----CGCTTCTACCAGGATGATTTATGAGAAGAATTTGTGA
1 TTGACGTTTCTGAGCAAATAGTATAAAACGCTTCTA-CAGGATGCTTTATGAGAAGAATTTGTGA
*
46454016 AATTGCG-CCTACGTGGACGCGCTTTTGCTACA
65 AA-TGCGCCCT-CGTGGACGCACTTTTGCTACA
46454048 ATAGCATGTT
Statistics
Matches: 194, Mismatches: 16, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
119 5 0.03
120 56 0.29
124 22 0.11
125 68 0.35
126 43 0.22
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (122 bp):
TTGACGTTTCTGAGCAAATAGTATAAAACGCTTCTACAGGATGCTTTATGAGAAGAATTTGTGAA
ATGCGCCCTCGTGGACGCACTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAG
Found at i:46457254 original size:29 final size:30
Alignment explanation
Indices: 46457220--46457279 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
46457210 TATATTTAAC
46457220 TTAAGGGTTAGGGTTTTAAAG-TTAAGGTT
1 TTAAGGGTTAGGGTTTTAAAGTTTAAGGTT
* **
46457249 TTAAGGTTTAGGGTTTTTCAGTTTAAGGTT
1 TTAAGGGTTAGGGTTTTAAAGTTTAAGGTT
46457279 T
1 T
46457280 ATGGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (30 bp):
TTAAGGGTTAGGGTTTTAAAGTTTAAGGTT
Found at i:46457265 original size:15 final size:14
Alignment explanation
Indices: 46457220--46457265 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
46457210 TATATTTAAC
46457220 TTAAGGGTTAGGGTT
1 TTAA-GGTTAGGGTT
* *
46457235 TTAAAGTTAAGGTT
1 TTAAGGTTAGGGTT
46457249 TTAAGGTTTAGGGTT
1 TTAAGG-TTAGGGTT
46457264 TT
1 TT
46457266 TCAGTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TTAAGGTTAGGGTT
Found at i:46457273 original size:22 final size:22
Alignment explanation
Indices: 46457248--46458409 Score: 353
Period size: 22 Copynumber: 53.6 Consensus size: 22
46457238 AAGTTAAGGT
*
46457248 TTTAAGGTTTAGGGTTTTTCAG
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46457270 TTTAAGGTTTATGGTTTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
*
46457292 TTT-AGGATTTATGGTTTTTAAG
1 TTTAAGG-TTTAGGGTTTTTAAG
* * *
46457314 ATTAAAGTTTATGGTTTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46457336 -TTAAGGGTTAGGG-TTTTATG
1 TTTAAGGTTTAGGGTTTTTAAG
46457356 TTT-AGAGTTT-GTGGTTTTTAAG
1 TTTAAG-GTTTAG-GGTTTTTAAG
*
46457378 TTTAAGGTTTAGGGTTTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
46457400 TTTAAGGTTTAGGGTTTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
46457422 TTT-AGGATTTTA-GGTTTTTAAG
1 TTTAAGG--TTTAGGGTTTTTAAG
* *
46457444 TTTAGGGTTTATGGTTTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46457466 TTT-AGGGTTAGTGTTTTTAA-
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46457486 TTTAAGGGTTAGTGTTTTTAA-
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46457507 TTTAAAGG-TTA-GG--ATTAGG
1 TTT-AAGGTTTAGGGTTTTTAAG
* * **
46457526 GTTAGGGTTTTAAAG---TTAATG
1 TTTAAGG-TTTAGGGTTTTTAA-G
* ** *
46457547 TTTTAGGGTTTAATGTTTTTAAA
1 -TTTAAGGTTTAGGGTTTTTAAG
** *
46457570 TTTAAGGTTTAAAGTTTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
*
46457592 TTTAGGGTTTTTAGGGGTTTAAGGGTTTTAAG
1 TTTAAGG--TTTA-GGG--T-----TTTTAAG
* *
46457624 -TTAAGGGTTAGGGTTTTT-GG
1 TTTAAGGTTTAGGGTTTTTAAG
* **
46457644 TTTAGGGTTTATGTTTTTCAAGTTTAAAG
1 TTTAAGGTTTA-G-GGTT----TTT-AAG
*
46457673 TTTAAGGTTTAGGG-TTTTAAA
1 TTTAAGGTTTAGGGTTTTTAAG
* * * * *
46457694 GTTTAAGGTTTATGG-TTTTTAA
1 TTTAA-GGTTTAGGGTTTTTAAG
* * *
46457716 GTTTAAGGTTTATGGTTTTTAAA
1 T-TTAAGGTTTAGGGTTTTTAAG
* *
46457739 TTAAAGG-TTAGCGTTTTTAA-
1 TTTAAGGTTTAGGGTTTTTAAG
46457759 TTTAAGAG-TTAGGGTTTTTAAG
1 TTTAAG-GTTTAGGGTTTTTAAG
* **
46457781 -TTAAGGGTTA--G-AATTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
* * **
46457799 GTTATGGTTTTAAAG---TTAATG
1 TTTAAGG-TTTAGGGTTTTTAA-G
* * *
46457820 TTTTAAGGTGTAAGAG-TTTTAAA
1 -TTTAAGGT-TTAGGGTTTTTAAG
* * **
46457843 TTTAGGGCTTAGCATTTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
** *
46457865 TTTAAGGTTTATTG-TTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46457886 TTTAAGGTTTAGTGTTTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
*
46457908 TTTAAGGTTT-GGGGTTTTAA-
1 TTTAAGGTTTAGGGTTTTTAAG
* * ** *
46457928 ATTAAGGGTTAATGTTTTTATG
1 TTTAAGGTTTAGGGTTTTTAAG
* * * *
46457950 TATAGGGTTTAGTG-TTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
* * *
46457971 TTTAGGGTTTAGTG-TTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
*
46457992 TTTAAAGTTT-GAGG-TTTTAAG
1 TTTAAGGTTTAG-GGTTTTTAAG
* * *
46458013 TTTAGGGTTT-GTGGGTTTTAGG
1 TTTAAGGTTTAG-GGTTTTTAAG
* ***
46458035 TTTAGGGTTTAATATTTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
* * *** *
46458057 -TTAAAGATTAACATTTTCAA-
1 TTTAAGGTTTAGGGTTTTTAAG
* *
46458077 TTTAAGGGTTAAGGTTTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
* * *
46458099 -TTAAGGGTTA-GG--ATTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
* * **
46458117 GTTAGGGTTTTAAAG---TTAATG
1 TTTAAGG-TTTAGGGTTTTTAA-G
*
46458138 TTTTAAGGTTTATGGTTTTTAAG
1 -TTTAAGGTTTAGGGTTTTTAAG
* *
46458161 TTTAGGGTTTAAGGG-TTTTAAA
1 TTTAAGGTTT-AGGGTTTTTAAG
*
46458183 TTTAGGGTTTTAGGG-TTTTAAG
1 TTTAAGG-TTTAGGGTTTTTAAG
*
46458205 -TTAA-GTGTTAGGGTTTTTAGG
1 TTTAAGGT-TTAGGGTTTTTAAG
* * *
46458226 TTTAGGGTGTTA-TGTTTTTATG
1 TTTAAGGT-TTAGGGTTTTTAAG
* *
46458248 -TTAAGGGTTT-TGGTTTTTAGGG
1 TTTAA-GGTTTAGGGTTTTTA-AG
* * *
46458270 TTTAGGGTTTATGGTTTTAAAG
1 TTTAAGGTTTAGGGTTTTTAAG
** *
46458292 TTT-AGGGCTAGGGTTTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
* * *
46458313 TTTATGGTTTAAGGTTTTTAGG
1 TTTAAGGTTTAGGGTTTTTAAG
46458335 TTTATA-GTTT-GTGGTTTTTAAG
1 TTTA-AGGTTTAG-GGTTTTTAAG
* *
46458357 -TTAAGGGTTAGCGTTTTTAA-
1 TTTAAGGTTTAGGGTTTTTAAG
*
46458377 TTTAAGGGTTAGGG-TTTTAAG
1 TTTAAGGTTTAGGGTTTTTAAG
*
46458398 -TTAAGGGTTAGG
1 TTTAAGGTTTAGG
46458410 ATTAGGGTTA
Statistics
Matches: 885, Mismatches: 163, Indels: 186
0.72 0.13 0.15
Matches are distributed among these distances:
18 15 0.02
19 14 0.02
20 76 0.09
21 318 0.36
22 364 0.41
23 46 0.05
24 16 0.02
25 1 0.00
26 2 0.00
27 4 0.00
28 4 0.00
29 14 0.02
31 5 0.01
32 6 0.01
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTAGGGTTTTTAAG
Found at i:46457385 original size:130 final size:130
Alignment explanation
Indices: 46457248--46457482 Score: 375
Period size: 130 Copynumber: 1.8 Consensus size: 130
46457238 AAGTTAAGGT
* *
46457248 TTTAAGGTTTAGGGTTTTTCA-GTTTAAGGTTTATGGTTTTTAGGTTTAGGA-TTTATGGTTTTT
1 TTTAAGGTTTAGGGTTTTT-AGGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTTA-GGTTTTT
46457311 AAGATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTATGTTTAGAGTTTGTGGTTTTTA
64 AAGATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTATGTTTAGAGTTTGTGGTTTTTA
46457376 AG
129 AG
46457378 TTTAAGGTTTAGGGTTTTTAGGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTTAGGTTTTTAA
1 TTTAAGGTTTAGGGTTTTTAGGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTTAGGTTTTTAA
* ** * *
46457443 GTTTAGGGTTTATGGTTTTTAAGTTTAGGGTTAGTGTTTT
66 GATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTT
46457483 TAATTTAAGG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
129 1 0.01
130 91 0.95
131 4 0.04
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (130 bp):
TTTAAGGTTTAGGGTTTTTAGGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTTAGGTTTTTAA
GATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTATGTTTAGAGTTTGTGGTTTTTAAG
Found at i:46457424 original size:15 final size:16
Alignment explanation
Indices: 46457400--46457432 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46457390 GGTTTTTAGG
*
46457400 TTTAAGGTTTAGGGTT
1 TTTAAGGTTTAGGATT
46457416 TTTAA-GTTTAGGATT
1 TTTAAGGTTTAGGATT
46457431 TT
1 TT
46457433 AGGTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (16 bp):
TTTAAGGTTTAGGATT
Found at i:46457503 original size:130 final size:129
Alignment explanation
Indices: 46457248--46457516 Score: 366
Period size: 130 Copynumber: 2.1 Consensus size: 129
46457238 AAGTTAAGGT
* *
46457248 TTTAAGGTTTAGGGTTTTTCAGTTTAAGGTTTATGGTTTTTAGGTTTAGGATTTATGGTTTTTAA
1 TTTAAGGTTTAGGGTTTTTCAGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTATGGTTTTTAA
* *
46457313 GATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTATGTTTAGAGTTTGTGGTTTTTAA
66 GATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTATGTTAAGAGTTAGTGGTTTTTAA
46457377 GTTTAAGGTTTAGGGTTTTT-AGGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTT-TAGGTTTT
1 -TTTAAGGTTTAGGGTTTTTCA-GTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTAT-GGTTTT
* ** * * *
46457440 TAAGTTTAGGGTTTATGGTTTTTAAGTTTAGGGTTAGTGTTTTTAAT-TTAAGGGTTAGT-GTTT
63 TAAGATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAG-GGTTTT-ATGTTAAGAGTTAGTGGTTT
46457503 TTAA
126 TTAA
46457507 TTTAAAGGTT
1 TTT-AAGGTT
46457517 AGGATTAGGG
Statistics
Matches: 124, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
129 5 0.04
130 103 0.83
131 14 0.11
132 2 0.02
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (129 bp):
TTTAAGGTTTAGGGTTTTTCAGTTTAAGGTTTAGGGTTTTTAAGTTTAGGATTTATGGTTTTTAA
GATTAAAGTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTATGTTAAGAGTTAGTGGTTTTTAA
Found at i:46457604 original size:53 final size:52
Alignment explanation
Indices: 46457547--46457653 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 52
46457537 AAAGTTAATG
* * * *
46457547 TTTTA-GGGTTTAATGTTTTTAAATTTAAGGTTTAAAGTTTTTAGGTTTAGGGT
1 TTTTAGGGGTTTAAGGGTTTT-AAGTTAAGGGTTAAAGTTTTT-GGTTTAGGGT
**
46457600 TTTTAGGGGTTTAAGGGTTTTAAGTTAAGGGTTAGGGTTTTTGGTTTAGGGT
1 TTTTAGGGGTTTAAGGGTTTTAAGTTAAGGGTTAAAGTTTTTGGTTTAGGGT
46457652 TT
1 TT
46457654 ATGTTTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 12 0.26
53 22 0.47
54 13 0.28
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (52 bp):
TTTTAGGGGTTTAAGGGTTTTAAGTTAAGGGTTAAAGTTTTTGGTTTAGGGT
Found at i:46457681 original size:29 final size:29
Alignment explanation
Indices: 46457643--46457711 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
46457633 AGGGTTTTTG
* * * *
46457643 GTTTAGGGTTTATGTTTTTCAAGTTTAAA
1 GTTTAAGGTTTAGGGTTTTAAAGTTTAAA
*
46457672 GTTTAAGGTTTAGGGTTTTAAAGTTTAAG
1 GTTTAAGGTTTAGGGTTTTAAAGTTTAAA
*
46457701 GTTTATGGTTT
1 GTTTAAGGTTT
46457712 TTAAGTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (29 bp):
GTTTAAGGTTTAGGGTTTTAAAGTTTAAA
Found at i:46457697 original size:15 final size:15
Alignment explanation
Indices: 46457658--46457704 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
46457648 GGGTTTATGT
* *
46457658 TTTTCAAGTTTAAAG
1 TTTTAAAGTTTAAGG
* *
46457673 -TTTAAGGTTTAGGG
1 TTTTAAAGTTTAAGG
46457687 TTTTAAAGTTTAAGG
1 TTTTAAAGTTTAAGG
46457702 TTT
1 TTT
46457705 ATGGTTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (15 bp):
TTTTAAAGTTTAAGG
Found at i:46457722 original size:6 final size:7
Alignment explanation
Indices: 46457665--46457733 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
46457655 TGTTTTTCAA
*
46457665 GTTTAAA
1 GTTTAAG
46457672 GTTTAAG
1 GTTTAAG
*
46457679 GTTTAGG
1 GTTTAAG
*
46457686 GTTTTAAA
1 G-TTTAAG
46457694 GTTTAAG
1 GTTTAAG
*
46457701 GTTTATG
1 GTTTAAG
46457708 GTTTTTAA-
1 G--TTTAAG
46457716 GTTTAAG
1 GTTTAAG
*
46457723 GTTTATG
1 GTTTAAG
46457730 GTTT
1 GTTT
46457734 TTAAATTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 5 0.10
7 35 0.70
8 6 0.12
9 4 0.08
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (7 bp):
GTTTAAG
Found at i:46457742 original size:21 final size:20
Alignment explanation
Indices: 46457674--46457791 Score: 96
Period size: 21 Copynumber: 5.5 Consensus size: 20
46457664 AGTTTAAAGT
*
46457674 TTAAGGTTTAGGGTTTTAAA
1 TTAAGGTTTAGGTTTTTAAA
*
46457694 GTTTAAGGTTTATGGTTTTTAAGT
1 --TTAAGGTTTA-GGTTTTTAA-A
46457718 TTAAGGTTTATGGTTTTTAAA
1 TTAAGGTTTA-GGTTTTTAAA
*
46457739 TTAAAGG-TTAGCGTTTTTAAT
1 TT-AAGGTTTAG-GTTTTTAAA
*
46457760 TTAAGAG-TTAGGGTTTTTAAG
1 TTAAG-GTTTA-GGTTTTTAAA
*
46457781 TTAAGGGTTAG
1 TTAAGGTTTAG
46457792 AATTAAGGTT
Statistics
Matches: 84, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.07
21 35 0.42
22 35 0.42
23 8 0.10
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (20 bp):
TTAAGGTTTAGGTTTTTAAA
Found at i:46457870 original size:6 final size:7
Alignment explanation
Indices: 46457859--46457917 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
46457849 GCTTAGCATT
46457859 TTTAA-G
1 TTTAAGG
46457865 TTTAAGG
1 TTTAAGG
**
46457872 TTTATTG
1 TTTAAGG
*
46457879 TTTTAGG
1 TTTAAGG
46457886 TTTAAGG
1 TTTAAGG
46457893 TTT-AGTG
1 TTTAAG-G
*
46457900 TTTTTAGG
1 -TTTAAGG
46457908 TTTAAGG
1 TTTAAGG
46457915 TTT
1 TTT
46457918 GGGGTTTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
6 7 0.17
7 29 0.69
8 4 0.10
9 2 0.05
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (7 bp):
TTTAAGG
Found at i:46457888 original size:21 final size:21
Alignment explanation
Indices: 46457858--46458045 Score: 166
Period size: 21 Copynumber: 8.9 Consensus size: 21
46457848 GGCTTAGCAT
* *
46457858 TTTTAAGTTTAAGGTTTATTG
1 TTTTAGGTTTAAGGTTTAGTG
46457879 TTTTAGGTTTAAGGTTTAGTG
1 TTTTAGGTTTAAGGTTTAGTG
* *
46457900 TTTTTAGGTTTAAGGTTTGGGG
1 -TTTTAGGTTTAAGGTTTAGTG
** * *
46457922 TTTTA-AATTAAGGGTTAATG
1 TTTTAGGTTTAAGGTTTAGTG
* * *
46457942 TTTTTATGTATAGGGTTTAGTG
1 -TTTTAGGTTTAAGGTTTAGTG
*
46457964 TTTTAGGTTTAGGGTTTAGTG
1 TTTTAGGTTTAAGGTTTAGTG
*
46457985 TTTTAGGTTTAAAGTTTGAG-G
1 TTTTAGGTTTAAGGTTT-AGTG
* *
46458006 TTTTAAGTTTAGGGTTT-GTGGG
1 TTTTAGGTTTAAGGTTTAGT--G
*
46458028 TTTTAGGTTTAGGGTTTA
1 TTTTAGGTTTAAGGTTTA
46458046 ATATTTTTAA
Statistics
Matches: 135, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.01
20 9 0.07
21 78 0.58
22 47 0.35
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (21 bp):
TTTTAGGTTTAAGGTTTAGTG
Found at i:46457973 original size:7 final size:7
Alignment explanation
Indices: 46457952--46458037 Score: 59
Period size: 7 Copynumber: 12.0 Consensus size: 7
46457942 TTTTTATGTA
*
46457952 TAGGGTT
1 TAGGTTT
46457959 TAGTGTTT
1 TAG-GTTT
46457967 TAGG-TT
1 TAGGTTT
*
46457973 TAGGGTT
1 TAGGTTT
46457980 TAGTGTTT
1 TAG-GTTT
46457988 TAGGTTT
1 TAGGTTT
* *
46457995 AAAGTTT
1 TAGGTTT
*
46458002 GAGGTTT
1 TAGGTTT
*
46458009 TAAG-TT
1 TAGGTTT
46458015 TAGGGTTT
1 TA-GGTTT
*
46458023 GTGGGTTT
1 -TAGGTTT
46458031 TAGGTTT
1 TAGGTTT
46458038 AGGGTTTAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
6 10 0.16
7 32 0.52
8 19 0.31
9 1 0.02
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (7 bp):
TAGGTTT
Found at i:46457987 original size:14 final size:14
Alignment explanation
Indices: 46457965--46458022 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
46457955 GGTTTAGTGT
46457965 TTTAG-GTTTAGGG
1 TTTAGAGTTTAGGG
*
46457978 TTTAGTGTTTTA-GG
1 TTTAGAG-TTTAGGG
* *
46457992 TTTAAAGTTTGAGGT
1 TTTAGAGTTT-AGGG
46458007 TTTA-AGTTTAGGG
1 TTTAGAGTTTAGGG
46458020 TTT
1 TTT
46458023 GTGGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 14 0.38
14 14 0.38
15 9 0.24
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
TTTAGAGTTTAGGG
Found at i:46458103 original size:21 final size:21
Alignment explanation
Indices: 46457922--46458407 Score: 139
Period size: 21 Copynumber: 22.8 Consensus size: 21
46457912 AGGTTTGGGG
* *
46457922 TTTTAAATTAAGGGTTAATGT
1 TTTTAAGTTAAGGGTTAAGGT
* *
46457943 TTTTATG-TATAGGGTTTA-GT
1 TTTTAAGTTA-AGGGTTAAGGT
* * *
46457963 GTTTTAGGTTTAGGGTTTA-GT
1 -TTTTAAGTTAAGGGTTAAGGT
* * * *
46457984 GTTTTAGGTTTAAAGTTTGAGG-
1 -TTTTAAG-TTAAGGGTTAAGGT
* ** *
46458006 TTTTAAGTTTAGGGTTTGTGGG
1 TTTTAAGTTAAGGG-TTAAGGT
* * **
46458028 TTTTAGGTTTAGGGTTTAATAT
1 TTTTAAGTTAAGGG-TTAAGGT
* * **
46458050 TTTTAAGTTAAAGATTAACAT
1 TTTTAAGTTAAGGGTTAAGGT
* *
46458071 TTTCAATTTAAGGGTTAAGGT
1 TTTTAAGTTAAGGGTTAAGGT
46458092 TTTTAAGTTAAGGGTT-AGG-
1 TTTTAAGTTAAGGGTTAAGGT
* * *
46458111 -ATTAGGGTT-AGGGTTTTAAAGT
1 TTTTA-AGTTAAGGG--TTAAGGT
** *** * *
46458133 TAATGTTTTAAGGTTTATGGT
1 TTTTAAGTTAAGGGTTAAGGT
* *
46458154 TTTTAAGTTTAGGGTTTAAGGG
1 TTTTAAGTTAAGGG-TTAAGGT
* * * *
46458176 TTTTAAATTTAGGGTTTTAGGG
1 TTTTAAGTTAAGGG-TTAAGGT
* *
46458198 TTTTAAGTTAAGTGTTAGGGT
1 TTTTAAGTTAAGGGTTAAGGT
* * * *
46458219 TTTTAGGTTTAGGGTGTTATGT
1 TTTTAAGTTAAGGGT-TAAGGT
* **
46458241 TTTTATGTTAAGGGTTTTGGT
1 TTTTAAGTTAAGGGTTAAGGT
* * *
46458262 TTTTAGGGTTTAGGGTTTATGGT
1 TTTTA-AGTTAAGGG-TTAAGGT
* * * *
46458285 TTTAAAGTTTAGGGCTAGGGT
1 TTTTAAGTTAAGGGTTAAGGT
* * *
46458306 TTTTAGGTTTATGGTTTAAGGT
1 TTTTAAG-TTAAGGGTTAAGGT
* * **
46458328 TTTTAGGTTTATA-GTTTGTGGT
1 TTTTAAG-TTA-AGGGTTAAGGT
46458350 TTTTAAGTTAAGGGTT-AGCGT
1 TTTTAAGTTAAGGGTTAAG-GT
* *
46458371 TTTTAATTTAAGGGTT-AGGG
1 TTTTAAGTTAAGGGTTAAGGT
46458391 TTTTAAGTTAAGGGTTA
1 TTTTAAGTTAAGGGTTA
46458408 GGATTAGGGT
Statistics
Matches: 349, Mismatches: 93, Indels: 46
0.72 0.19 0.09
Matches are distributed among these distances:
18 7 0.02
19 3 0.01
20 31 0.09
21 156 0.45
22 136 0.39
23 16 0.05
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (21 bp):
TTTTAAGTTAAGGGTTAAGGT
Found at i:46458163 original size:15 final size:16
Alignment explanation
Indices: 46458138--46458170 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46458128 AAAGTTAATG
*
46458138 TTTTAAGGTTTATGGT
1 TTTTAAGGTTTAGGGT
46458154 TTTTAA-GTTTAGGGT
1 TTTTAAGGTTTAGGGT
46458169 TT
1 TT
46458171 AAGGGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (16 bp):
TTTTAAGGTTTAGGGT
Found at i:46458232 original size:43 final size:43
Alignment explanation
Indices: 46458146--46458583 Score: 235
Period size: 43 Copynumber: 10.2 Consensus size: 43
46458136 TGTTTTAAGG
* **
46458146 TTTATGGTTTTTAAGTTTAGGGTTTAAGGG-TTTTAAATTTAGGGT
1 TTTA-GGTTTTTAAGTTAAGGG-TT-AGGGTTTTTAGGTTTAGGGT
* *
46458191 TTTAGGGTTTTAAGTTAAGTGTTAGGGTTTTTAGGTTTAGGGT
1 TTTAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTTAGGGT
* * * **
46458234 GTTATGTTTTTATGTTAAGGGTTTTGGTTTTTAGGGTTTAGGG-
1 TTTAGGTTTTTAAGTTAAGGGTTAGGGTTTTTA-GGTTTAGGGT
* * * *
46458277 TTTATGGTTTTAAAGTTTAGGGCTAGGGTTTTTAGGTTTATGGT
1 TTTA-GGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTTAGGGT
* * * ** * * *
46458321 TTAAGGTTTTTAGGTTTATAGTTTGTGGTTTTTAAGTTAAGGG-
1 TTTAGGTTTTTAAGTTAAGGGTTAG-GGTTTTTAGGTTTAGGGT
* * *
46458364 -TTAGCGTTTTTAATTTAAGGGTTAGGG-TTTTAAGTTAAGGG-
1 TTTAG-GTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTTAGGGT
* * ** *
46458405 -TTAGG--ATTAGGGTT-AGGGTTTTAAAG--TTAAGGTTATAGGG-
1 TTTAGGTTTTTA-AGTTAAGGG--TTAGGGTTTTTAGGTT-TAGGGT
* ** * * **
46458445 TTTATGG-TTTTGAGTTTTGAGTCTAGTG-TTTTAGGTTTA-TTT
1 TTTA-GGTTTTTAAGTTAAGGGT-TAGGGTTTTTAGGTTTAGGGT
* *
46458487 TTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAAGTTTAGGGT
1 TTTA-GGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTTAGGGT
* *
46458531 TTGAGGTTTTTAAGTTAAGGGTTATGGG-TTTTAGGGTTTGGGGT
1 TTTAGGTTTTTAAGTTAAGGGTTA-GGGTTTTTA-GGTTTAGGGT
*
46458575 TTAAGGTTT
1 TTTAGGTTT
46458584 GGGGTTTGTG
Statistics
Matches: 300, Mismatches: 71, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
38 7 0.02
39 8 0.03
40 9 0.03
41 22 0.07
42 28 0.09
43 138 0.46
44 84 0.28
45 4 0.01
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (43 bp):
TTTAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAGGTTTAGGGT
Found at i:46458308 original size:65 final size:65
Alignment explanation
Indices: 46458239--46458394 Score: 165
Period size: 65 Copynumber: 2.4 Consensus size: 65
46458229 AGGGTGTTAT
* * *
46458239 GTTTTTATGTTAAGGGTTT-TGGTTTTTAGGGTTTAGGGTTTATGGTTTTAAAGTTTAGGGCTAG
1 GTTTTTATGTTAAGGGTTTAAGGTTTTTA-GGTTTAGAGTTTATGGTTTTAAAGTTAAGGGCTAG
*
46458303 G
65 C
* * * * * * *
46458304 GTTTTTAGGTTTATGGTTTAAGGTTTTTAGGTTTATAGTTTGTGGTTTTTAAGTTAAGGGTTAGC
1 GTTTTTATGTTAAGGGTTTAAGGTTTTTAGGTTTAGAGTTTATGGTTTTAAAGTTAAGGGCTAGC
*
46458369 GTTTTTAAT-TTAAGGG-TTAGGGTTTT
1 GTTTTT-ATGTTAAGGGTTTAAGGTTTT
46458395 AAGTTAAGGG
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
64 9 0.12
65 56 0.76
66 9 0.12
ACGTcount: A:0.18, C:0.01, G:0.29, T:0.51
Consensus pattern (65 bp):
GTTTTTATGTTAAGGGTTTAAGGTTTTTAGGTTTAGAGTTTATGGTTTTAAAGTTAAGGGCTAGC
Found at i:46458519 original size:22 final size:21
Alignment explanation
Indices: 46458492--46458563 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
46458482 TATTTTTTAG
46458492 GGTTTTTAAGTTAAGGGTTAA
1 GGTTTTTAAGTTAAGGGTTAA
* *
46458513 GGTTTTTAAGTTTAGGGTTTGA
1 GGTTTTTAAGTTAAGGG-TTAA
*
46458535 GGTTTTTAAGTTAAGGGTTAT
1 GGTTTTTAAGTTAAGGGTTAA
*
46458556 GGGTTTTA
1 GGTTTTTA
46458564 GGGTTTGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
21 25 0.57
22 19 0.43
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAA
Found at i:46458574 original size:7 final size:7
Alignment explanation
Indices: 46458549--46458609 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
46458539 TTTAAGTTAA
46458549 GGGTTATG
1 GGGTT-TG
* *
46458557 GGTTTTA
1 GGGTTTG
46458564 GGGTTTG
1 GGGTTTG
*
46458571 GGGTTTA
1 GGGTTTG
*
46458578 AGGTTTG
1 GGGTTTG
46458585 GGGTTTG
1 GGGTTTG
*
46458592 TGG-TTG
1 GGGTTTG
*
46458598 GGGTTTA
1 GGGTTTG
46458605 GGGTT
1 GGGTT
46458610 ATCGTTTTTA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
6 5 0.12
7 32 0.78
8 4 0.10
ACGTcount: A:0.08, C:0.00, G:0.48, T:0.44
Consensus pattern (7 bp):
GGGTTTG
Found at i:46458577 original size:14 final size:14
Alignment explanation
Indices: 46458548--46458609 Score: 74
Period size: 14 Copynumber: 4.4 Consensus size: 14
46458538 TTTTAAGTTA
*
46458548 AGGGTTATGGGTTTT
1 AGGGTT-TGGGGTTT
46458563 AGGGTTTGGGGTTT
1 AGGGTTTGGGGTTT
*
46458577 AAGGTTTGGGGTTT
1 AGGGTTTGGGGTTT
46458591 -GTGG-TTGGGGTTT
1 AG-GGTTTGGGGTTT
46458604 AGGGTT
1 AGGGTT
46458610 ATCGTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 11 0.27
14 24 0.59
15 6 0.15
ACGTcount: A:0.10, C:0.00, G:0.47, T:0.44
Consensus pattern (14 bp):
AGGGTTTGGGGTTT
Found at i:46458638 original size:21 final size:21
Alignment explanation
Indices: 46458614--46458653 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46458604 AGGGTTATCG
* *
46458614 TTTTTAATTTTAGGGTTAGAA
1 TTTTTAAGTTAAGGGTTAGAA
46458635 TTTTTAAGTTAAGGGTTAG
1 TTTTTAAGTTAAGGGTTAG
46458654 GATTAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGAA
Found at i:46462628 original size:18 final size:19
Alignment explanation
Indices: 46462604--46462654 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
46462594 TAGGCAACTT
46462604 TTTTTTTGCGCTTTTGCGC
1 TTTTTTTGCGCTTTTGCGC
* *
46462623 -TTTTTTGC-TTTTTGCTC
1 TTTTTTTGCGCTTTTGCGC
46462640 TTTTTTTGCGCTTTT
1 TTTTTTTGCGCTTTT
46462655 TACTCTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.00, C:0.18, G:0.16, T:0.67
Consensus pattern (19 bp):
TTTTTTTGCGCTTTTGCGC
Found at i:46462701 original size:9 final size:10
Alignment explanation
Indices: 46462676--46462700 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46462666 TTTTTTGCAC
46462676 TTTTTTGTTT
1 TTTTTTGTTT
46462686 TTTTTTGTTT
1 TTTTTTGTTT
46462696 TTTTT
1 TTTTT
46462701 GCGCTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:46462725 original size:29 final size:29
Alignment explanation
Indices: 46462666--46462726 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
46462656 ACTCTCTCTC
** *
46462666 TTTTTTGCACTTTTTTGTTTTTTTTTGTT
1 TTTTTTGCACTTTTTACTTTTTCTTTGTT
*
46462695 TTTTTTGCGCTTTTTACTTTTTACTTT-TT
1 TTTTTTGCACTTTTTACTTTTT-CTTTGTT
46462724 TTT
1 TTT
46462727 GCTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (29 bp):
TTTTTTGCACTTTTTACTTTTTCTTTGTT
Found at i:46463313 original size:31 final size:32
Alignment explanation
Indices: 46463275--46463337 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
46463265 AGGCAAATTA
46463275 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
46463306 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
46463338 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:46464878 original size:11 final size:12
Alignment explanation
Indices: 46464862--46464916 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
46464852 ATTAAATATG
46464862 AATTTGAGA-GA
1 AATTTGAGAGGA
*
46464873 AATTTGAAAGGA
1 AATTTGAGAGGA
46464885 AA-TTGAGAGGA
1 AATTTGAGAGGA
46464896 AA-TTGAGAGGA
1 AATTTGAGAGGA
*
46464907 AATTCGAGAG
1 AATTTGAGAG
46464917 AGAATTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
11 29 0.74
12 10 0.26
ACGTcount: A:0.45, C:0.02, G:0.31, T:0.22
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:46464890 original size:22 final size:22
Alignment explanation
Indices: 46464865--46464924 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 22
46464855 AAATATGAAT
46464865 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
*
46464887 TTGAGAGGAAA-TTGAGAGGAAA
1 TTGAGA-GAAATTTGAAAGGAAA
46464909 TTCGAGAGAGAATTTG
1 TT-GAGAGA-AATTTG
46464925 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 20 0.61
23 10 0.30
24 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:46467883 original size:11 final size:10
Alignment explanation
Indices: 46467850--46467882 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
46467840 CCCATGTTGC
46467850 TTTCTCTTACT
1 TTTCTCTTA-T
46467861 TTTCT-TTAT
1 TTTCTCTTAT
46467870 TTTCTCTTAT
1 TTTCTCTTAT
46467880 TTT
1 TTT
46467883 TTTCACGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 10 0.48
11 5 0.24
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTCTCTTAT
Found at i:46469779 original size:14 final size:13
Alignment explanation
Indices: 46469751--46469793 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
46469741 TTAGCGTTGC
*
46469751 ATTTGAAAAAA-T
1 ATTTAAAAAAATT
46469763 ATTGTAAAAAAATT
1 ATT-TAAAAAAATT
*
46469777 ATTTAAAAAAATA
1 ATTTAAAAAAATT
46469790 ATTT
1 ATTT
46469794 TGAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (13 bp):
ATTTAAAAAAATT
Found at i:46481521 original size:38 final size:38
Alignment explanation
Indices: 46481470--46481546 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
46481460 CTGGAAGTAT
*
46481470 ATTCTTTCAATCTCCGAAGATTCATTATTATTCATTTA
1 ATTCTTTCAATCTCCAAAGATTCATTATTATTCATTTA
*
46481508 ATTCTTTCAATCTCTAAAGATTCATTATTATTCATTTA
1 ATTCTTTCAATCTCCAAAGATTCATTATTATTCATTTA
46481546 A
1 A
46481547 ACTGACCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (38 bp):
ATTCTTTCAATCTCCAAAGATTCATTATTATTCATTTA
Found at i:46486891 original size:31 final size:29
Alignment explanation
Indices: 46486853--46486930 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
46486843 CTAACGGCTC
* *
46486853 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
46486884 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
46486913 AGTGACTAAAATGTAACA
1 AGTGACTAAAATGTAACA
46486931 TGAGCCAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 23 0.56
30 3 0.07
31 15 0.37
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:46486947 original size:31 final size:29
Alignment explanation
Indices: 46486878--46486951 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
46486868 ACAACGTGAT
**
46486878 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGCCA
*
46486907 AACATAAGTGACTAAAATGTAACATGAGCCA
1 AACATAAGTGACTAAAACGTAACAT--GCCA
*
46486938 AACAAAAGTGACTA
1 AACATAAGTGACTA
46486952 TTTTGGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGCCA
Done.