Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 88 of 135
Found at i:33643910 original size:20 final size:22
Alignment explanation
Indices: 33643883--33643935 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
33643873 ATTGGTTTAA
*
33643883 TAAAATAATATATAATA-AACT
1 TAAAATAATATATAAAACAACT
33643904 T-AAATAATAATATAAAACAACT
1 TAAAATAAT-ATATAAAACAACT
33643926 TAAAATAATA
1 TAAAATAATA
33643936 GTCTATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.25
21 8 0.29
22 6 0.21
23 7 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATAATATATAAAACAACT
Found at i:33643912 original size:23 final size:25
Alignment explanation
Indices: 33643886--33643965 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 25
33643876 GGTTTAATAA
33643886 AATAATATATAATA-AACTT-AAAT
1 AATAATATATAATACAACTTAAAAT
33643909 AATAATATA-AA-ACAACTTAAAAT
1 AATAATATATAATACAACTTAAAAT
* * *
33643932 AATAGTCTATAATAGAA--TAAAAT
1 AATAATATATAATACAACTTAAAAT
*
33643955 TAT-ATATATAA
1 AATAATATATAA
33643966 ACAGATTAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 13 0.28
23 28 0.60
24 2 0.04
25 3 0.06
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (25 bp):
AATAATATATAATACAACTTAAAAT
Found at i:33643995 original size:3 final size:3
Alignment explanation
Indices: 33643987--33644033 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
33643977 AAATCGATAT
* * *
33643987 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ACA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33644034 GTAACTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33644325 original size:4 final size:4
Alignment explanation
Indices: 33644316--33644349 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
33644306 ATATATCATA
33644316 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
33644350 AATATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:33644571 original size:3 final size:3
Alignment explanation
Indices: 33644563--33644609 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
33644553 AAATCGATAT
* * *
33644563 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ACA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33644610 GTAACTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33645158 original size:20 final size:22
Alignment explanation
Indices: 33645131--33645183 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
33645121 ATTGGTTTAA
*
33645131 TAAAATAATATATAATA-AACT
1 TAAAATAATATATAAAACAACT
33645152 T-AAATAATAATATAAAACAACT
1 TAAAATAAT-ATATAAAACAACT
33645174 TAAAATAATA
1 TAAAATAATA
33645184 GTCTATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.25
21 8 0.29
22 6 0.21
23 7 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATAATATATAAAACAACT
Found at i:33645160 original size:23 final size:25
Alignment explanation
Indices: 33645134--33645213 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 25
33645124 GGTTTAATAA
33645134 AATAATATATAATA-AACTT-AAAT
1 AATAATATATAATACAACTTAAAAT
33645157 AATAATATA-AA-ACAACTTAAAAT
1 AATAATATATAATACAACTTAAAAT
* * *
33645180 AATAGTCTATAATAGAA--TAAAAT
1 AATAATATATAATACAACTTAAAAT
*
33645203 TAT-ATATATAA
1 AATAATATATAA
33645214 ACAGATTAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 13 0.28
23 28 0.60
24 2 0.04
25 3 0.06
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (25 bp):
AATAATATATAATACAACTTAAAAT
Found at i:33645243 original size:3 final size:3
Alignment explanation
Indices: 33645235--33645328 Score: 161
Period size: 3 Copynumber: 31.3 Consensus size: 3
33645225 AAATCGATAT
* *
33645235 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
33645283 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33645329 AGTAACTAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33646697 original size:22 final size:22
Alignment explanation
Indices: 33646650--33646691 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33646640 AGGATAAGAA
*
33646650 TCTGCATCTGTACCTGATATGT
1 TCTGCATCTATACCTGATATGT
*
33646672 TCTGCATCTATATCTGATAT
1 TCTGCATCTATACCTGATAT
33646692 TCTCTGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (22 bp):
TCTGCATCTATACCTGATATGT
Found at i:33648232 original size:25 final size:27
Alignment explanation
Indices: 33648203--33648252 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
33648193 AAAACCAAAG
*
33648203 TTTAATTTTAATAT-AATA-TTTATAT
1 TTTAATTGTAATATGAATACTTTATAT
*
33648228 TTTAATTGTATTATGAATACTTTAT
1 TTTAATTGTAATATGAATACTTTAT
33648253 TATCTCCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 4 0.19
27 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTAATTGTAATATGAATACTTTATAT
Found at i:33649242 original size:17 final size:18
Alignment explanation
Indices: 33649212--33649246 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
33649202 TTAGATCCCA
33649212 TTTGAAGAAATTTTATTT
1 TTTGAAGAAATTTTATTT
33649230 TTTGAAG-AATTTTATTT
1 TTTGAAGAAATTTTATTT
33649247 ATTTATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTGAAGAAATTTTATTT
Found at i:33651385 original size:32 final size:33
Alignment explanation
Indices: 33651349--33651418 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
33651339 TGTGCCAGGC
* *
33651349 CGTGTGGG-CTACATGGGCAAGGCCATTTTGGG-
1 CGTGTGGGCCCACATAGGCAA-GCCATTTTGGGT
33651381 CGTGTGGGCCCACATAGGCAAGCCATTTTGGGT
1 CGTGTGGGCCCACATAGGCAAGCCATTTTGGGT
33651414 CGTGT
1 CGTGT
33651419 AGACCCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.26
Consensus pattern (33 bp):
CGTGTGGGCCCACATAGGCAAGCCATTTTGGGT
Found at i:33652920 original size:14 final size:14
Alignment explanation
Indices: 33652901--33652928 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33652891 CTCATGGGTA
33652901 CGGCGAAATCGTAG
1 CGGCGAAATCGTAG
33652915 CGGCGAAATCGTAG
1 CGGCGAAATCGTAG
33652929 AGGGACTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.36, T:0.14
Consensus pattern (14 bp):
CGGCGAAATCGTAG
Found at i:33655044 original size:20 final size:21
Alignment explanation
Indices: 33654998--33655044 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
33654988 ATTCCAAATT
*
33654998 TTTTATATAGTATTGATTTTC
1 TTTTATATAGTATTGATTTTA
* * *
33655019 TCTTAT-TATTATTTATTTTA
1 TTTTATATAGTATTGATTTTA
33655039 TTTTAT
1 TTTTAT
33655045 GATAAGATGT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATATAGTATTGATTTTA
Found at i:33666166 original size:255 final size:255
Alignment explanation
Indices: 33665713--33666213 Score: 808
Period size: 255 Copynumber: 2.0 Consensus size: 255
33665703 ATATTAATTT
*
33665713 TGGTTATGGTCAATCTCTAGGAGAAAATGTAAAAGAACTAGCGTGTGTGTTGGCTAAAAAGGTAA
1 TGGTTATGGTCAATCTCTAGGAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCTAAAAAGGTAA
** *
33665778 AAGACCAGCCCAAAAGTACTTTTTGGCTAAAAAAGTTAAAAAATTTTGCATTTTCATCTGTCCAA
66 AAGACCAGCCCAAAAACACTTTTTGGCTAAAAAAGTTAAAAAATTTTGCATTTTCATCTGCCCAA
* * * *
33665843 AAATACTTTAAATAAGTTAAAAATTTACTACCACCGAAGTTTGTTCTTTATTACTTTTCACTCAA
131 AAACACTTTAAAAAAGTTAAAAATCTACTACCACCGAAGTTTGTTCTTTATTACTTTTCACCCAA
*
33665908 AAGCACTTTTATATGTAAAAATACTTTCCAAACACCCAAAATAACACAGCCGAACAAAGA
196 AAGCACTTTTATATGTAAAAATACTTTCCAAACACCCAAAAGAACACAGCCGAACAAAGA
33665968 TGGTTATGGTCAATCT-TCAGGAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCTAAAAAGGTA
1 TGGTTATGGTCAATCTCT-AGGAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCTAAAAAGGTA
* * * *
33666032 AAAGACCAGTCCAAAAACACTTTTTGGCTGAAAAAGTTAAAAATTTTTGCGTTTTCATCTGCCCA
65 AAAGACCAGCCCAAAAACACTTTTTGGCTAAAAAAGTTAAAAAATTTTGCATTTTCATCTGCCCA
*
33666097 AAAGCACTTTAAAAAAGTTAAAAATCTA-TCACCACCGAAGTTTGTTCTTTATTACTTTTCACCC
130 AAAACACTTTAAAAAAGTTAAAAATCTACT-ACCACCGAAGTTTGTTCTTTATTACTTTTCACCC
* * * *
33666161 AAAAGCACTTTTATATGTAAAAATATTTTTCAAACGCCCAAAAGAACTCAGCC
194 AAAAGCACTTTTATATGTAAAAATACTTTCCAAACACCCAAAAGAACACAGCC
33666214 TTAGTATAAC
Statistics
Matches: 226, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
254 2 0.01
255 224 0.99
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (255 bp):
TGGTTATGGTCAATCTCTAGGAGAAAATGTAAAAGAACCAGCGTGTGTGTTGGCTAAAAAGGTAA
AAGACCAGCCCAAAAACACTTTTTGGCTAAAAAAGTTAAAAAATTTTGCATTTTCATCTGCCCAA
AAACACTTTAAAAAAGTTAAAAATCTACTACCACCGAAGTTTGTTCTTTATTACTTTTCACCCAA
AAGCACTTTTATATGTAAAAATACTTTCCAAACACCCAAAAGAACACAGCCGAACAAAGA
Found at i:33674825 original size:23 final size:23
Alignment explanation
Indices: 33674796--33674842 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
33674786 TATTTATCAG
33674796 ATTTTAATTTATA-ATAAAGTGTA
1 ATTTTAATTTATATATAAA-TGTA
33674819 ATTTTAATTTATATATAAATGTA
1 ATTTTAATTTATATATAAATGTA
33674842 A
1 A
33674843 CATTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
ATTTTAATTTATATATAAATGTA
Found at i:33674848 original size:23 final size:23
Alignment explanation
Indices: 33674799--33674857 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
33674789 TTATCAGATT
**
33674799 TTAATTTATAATAAAGTGTAATT
1 TTAATTTATAATAAAGTGTAACA
33674822 TTAATTTATATATAAA-TGTAACA
1 TTAATTTATA-ATAAAGTGTAACA
33674845 TTAA-TTA-AATAAA
1 TTAATTTATAATAAA
33674858 AATTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 5 0.15
21 1 0.03
22 3 0.09
23 19 0.58
24 5 0.15
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (23 bp):
TTAATTTATAATAAAGTGTAACA
Found at i:33678651 original size:21 final size:19
Alignment explanation
Indices: 33678627--33678680 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 19
33678617 TTCAACATAA
33678627 TTAAAATATATTAACTATTTC
1 TTAAAAT-TA-TAACTATTTC
33678648 TTAAAATTA-AA-TATTTC
1 TTAAAATTATAACTATTTC
33678665 TTAAAATTATAACTAT
1 TTAAAATTATAACTAT
33678681 GTTTATCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 3 0.10
20 2 0.06
21 7 0.23
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAAATTATAACTATTTC
Found at i:33679931 original size:29 final size:29
Alignment explanation
Indices: 33679899--33679966 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
33679889 TATGTGATAA
* *
33679899 AAATTATAATACTGAATAATTGAATAATT
1 AAATTGTAATACTGAATAATTGAATAATC
** * *
33679928 AAATTGTAATTTTGTATAATTGAGTAATC
1 AAATTGTAATACTGAATAATTGAATAATC
33679957 AAATTGTAAT
1 AAATTGTAAT
33679967 TTTACGCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (29 bp):
AAATTGTAATACTGAATAATTGAATAATC
Found at i:33679967 original size:29 final size:29
Alignment explanation
Indices: 33679914--33679969 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
33679904 ATAATACTGA
*
33679914 ATAATTGAATAATTAAATTGTAATTTTGT
1 ATAATTGAATAATCAAATTGTAATTTTGT
*
33679943 ATAATTGAGTAATCAAATTGTAATTTT
1 ATAATTGAATAATCAAATTGTAATTTT
33679970 ACGCATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (29 bp):
ATAATTGAATAATCAAATTGTAATTTTGT
Found at i:33682409 original size:21 final size:19
Alignment explanation
Indices: 33682384--33682429 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
33682374 TATTTTTTTT
*
33682384 ATAAAGTAAATGTCTATTAAA
1 ATAAAATAAATGTCTA-T-AA
*
33682405 ATAAAATATATGTCTATAA
1 ATAAAATAAATGTCTATAA
33682424 ATAAAA
1 ATAAAA
33682430 ACTTTGGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 14 0.61
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAAAATAAATGTCTATAA
Found at i:33683747 original size:2 final size:2
Alignment explanation
Indices: 33683740--33683776 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
33683730 GAATGTGTAA
*
33683740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33683777 AAATAAGACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:33702426 original size:3 final size:3
Alignment explanation
Indices: 33702418--33702478 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
33702408 TTCTGTAGTT
33702418 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33702466 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
33702479 ATTGTATGCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33705195 original size:13 final size:13
Alignment explanation
Indices: 33705177--33705210 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33705167 ACACGTGTGG
*
33705177 TATATATATTATA
1 TATATATATAATA
33705190 TATATATATAATA
1 TATATATATAATA
*
33705203 TACATATA
1 TATATATA
33705211 CATGTACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATATATAATA
Found at i:33710511 original size:11 final size:10
Alignment explanation
Indices: 33710490--33710515 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33710480 AGGGGACTTC
33710490 TTTTGTTTTT
1 TTTTGTTTTT
33710500 TTTTGTTTTT
1 TTTTGTTTTT
33710510 TTTTGT
1 TTTTGT
33710516 GCTGTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:33711025 original size:30 final size:30
Alignment explanation
Indices: 33710968--33711025 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
33710958 TATATGCACA
*
33710968 TACATATTCTTTTTATAATTTATATACATG
1 TACATATTCTTTTTATAATTTAAATACATG
*
33710998 TACATATTCTTTATT-TATTTTAAATACA
1 TACATATTCTTT-TTATAATTTAAATACA
33711026 CATTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (30 bp):
TACATATTCTTTTTATAATTTAAATACATG
Found at i:33711062 original size:12 final size:12
Alignment explanation
Indices: 33711045--33711083 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33711035 TATTTCATAT
*
33711045 TATATATATGCA
1 TATATATATACA
*
33711057 TATATATATACT
1 TATATATATACA
*
33711069 TATATATTTACA
1 TATATATATACA
33711081 TAT
1 TAT
33711084 TTTAATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (12 bp):
TATATATATACA
Found at i:33714556 original size:17 final size:18
Alignment explanation
Indices: 33714526--33714559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33714516 CAGTGGAGGT
*
33714526 AAAAATAAATAAAAAATA
1 AAAAACAAATAAAAAATA
33714544 AAAAACAAA-AAAAAAT
1 AAAAACAAATAAAAAAT
33714560 CTACCGGGGC
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:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAACAAATAAAAAATA
Found at i:33715015 original size:18 final size:19
Alignment explanation
Indices: 33714992--33715039 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
33714982 CTTCATTTGA
*
33714992 AAAAAAGAAACGAA-AAAG
1 AAAAAAGAAAAGAAGAAAG
*
33715010 AAAAAAGAAAAGAAGAACG
1 AAAAAAGAAAAGAAGAAAG
33715029 AAAAAAGAAAA
1 AAAAAAGAAAA
33715040 AGGAGAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAGAAGAAAG
Found at i:33715026 original size:26 final size:26
Alignment explanation
Indices: 33714990--33715040 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
33714980 TACTTCATTT
33714990 GAAAAAAAGAAACG-AAAAAGAAAAAA
1 GAAAAAAAG-AACGAAAAAAGAAAAAA
*
33715016 GAAAAGAAGAACGAAAAAAGAAAAA
1 GAAAAAAAGAACGAAAAAAGAAAAA
33715041 GGAGAGGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (26 bp):
GAAAAAAAGAACGAAAAAAGAAAAAA
Found at i:33716112 original size:45 final size:44
Alignment explanation
Indices: 33715995--33716134 Score: 149
Period size: 45 Copynumber: 3.1 Consensus size: 44
33715985 TTCCCCAGAG
* * * *
33715995 AGCAGACTAAAGATAGCAGATCTTGCCGTCCTGTACTGACGGTGA
1 AGCAGACTGAAGATAGCA-ATCTTGCCTTCCTGTACTGACAGCGA
* * *
33716040 AGCAGA-TCGAAGA-AACTAGTCTTGCCTTCCTGTACTGACAGCGG
1 AGCAGACT-GAAGATAGC-AATCTTGCCTTCCTGTACTGACAGCGA
* *
33716084 AGCAGACTGGAAGATAGCAATCTTGCCTTCCTGCATTGACAGCGA
1 AGCAGACT-GAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGA
33716129 AGCAGA
1 AGCAGA
33716135 TCAAAGATGG
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
44 30 0.38
45 46 0.59
46 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (44 bp):
AGCAGACTGAAGATAGCAATCTTGCCTTCCTGTACTGACAGCGA
Found at i:33716304 original size:95 final size:95
Alignment explanation
Indices: 33716132--33716325 Score: 334
Period size: 95 Copynumber: 2.0 Consensus size: 95
33716122 ACAGCGAAGC
* * * **
33716132 AGATCAAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCT
1 AGATAAAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAACTCT
33716197 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
33716227 AGATAAAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAACTCT
1 AGATAAAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAACTCT
*
33716292 ATCTCCCTGGTTGGTAGTGGAATAGATTGA
66 ATCTCCCTGGTTGGCAGTGGAATAGATTGA
33716322 AGAT
1 AGAT
33716326 TGCAGATCTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATAAAAAATGGCAAATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCAATAACTCT
ATCTCCCTGGTTGGCAGTGGAATAGATTGA
Found at i:33716462 original size:49 final size:48
Alignment explanation
Indices: 33716399--33716493 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 48
33716389 TGACTACAGT
**
33716399 GGAGTACATTGAAGCCGATAATTCTATCTCCCTGAAGTT-GCAGTGGAGC
1 GGAGTACATTGAAGCCGATAACACTATCTCCCTG--GTTGGCAGTGGAGC
* *
33716448 GGAGTACATTGAAGCTGATACCACTATCTCCCTGGTTGGCAGTGGA
1 GGAGTACATTGAAGCCGATAACACTATCTCCCTGGTTGGCAGTGGA
33716494 ATAGATTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
47 3 0.07
48 8 0.20
49 30 0.73
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (48 bp):
GGAGTACATTGAAGCCGATAACACTATCTCCCTGGTTGGCAGTGGAGC
Found at i:33716536 original size:46 final size:46
Alignment explanation
Indices: 33716483--33716702 Score: 132
Period size: 46 Copynumber: 4.9 Consensus size: 46
33716473 ATCTCCCTGG
* *
33716483 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTAT
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTCCCTGTAT
* * * *
33716529 TTGGCAGT-GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGA-
1 TTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTCCCTGT-AT
* * * * ** * * * *
33716575 CT-ACAGTGGAGTACATTGAAG-CCG-ATACCTCTATCTCCCTG--G
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTCCCTGTAT
* * *
33716617 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATAT
1 TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTCCCTGTAT
* * * * *
33716663 TTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTACCTCC
1 TTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTCC
33716703 TTGACTACAA
Statistics
Matches: 125, Mismatches: 38, Indels: 22
0.68 0.21 0.12
Matches are distributed among these distances:
42 1 0.01
43 19 0.15
44 17 0.14
45 21 0.17
46 66 0.53
47 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTCCCTGTAT
Found at i:33716571 original size:181 final size:181
Alignment explanation
Indices: 33716267--33716627 Score: 582
Period size: 181 Copynumber: 2.0 Consensus size: 181
33716257 TGACTACAGT
* *
33716267 GGAGTACATTGAAGCCAATAACTCTATCTCCCTGGTTGGTAGTGGAATAGATTGAAGATTGCAGA
1 GGAGTACATTGAAGCCAATAACACTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
* *
33716332 TCTTGCTTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGAAGATTTTACCTCCC-TGACTAC
66 TCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGAAGATTTTACCTCCCGTGACTAC
*
33716396 AGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGAAGTT-GCAGTGGAGC
131 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG--GTTGGCAGTGGAGC
** *
33716448 GGAGTACATTGAAGCTGATACCACTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
1 GGAGTACATTGAAGCCAATAACACTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
* *
33716513 TCTTGCCTTCCTGTATTTGGCAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTA
66 TCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGAAGATTTTACCTCCC-GTGACTA
*
33716578 CAGTGGAGTACATTGAAGCCGATACCTCTATCTCCCTGGTTGGCAGTGGA
130 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGGTTGGCAGTGGA
33716628 ATAGATTGAA
Statistics
Matches: 166, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
181 116 0.70
182 8 0.05
183 42 0.25
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (181 bp):
GGAGTACATTGAAGCCAATAACACTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
TCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGAAGATTTTACCTCCCGTGACTAC
AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGGTTGGCAGTGGAGC
Found at i:33716602 original size:134 final size:132
Alignment explanation
Indices: 33716448--33716790 Score: 605
Period size: 134 Copynumber: 2.6 Consensus size: 132
33716438 GCAGTGGAGC
* *
33716448 GGAGTACATTGAAGCTGATACCACTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
1 GGAGTACATTGAAGCCGATACCTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
* *
33716513 TCTTGCCTTCCTGTATTTGGCAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTA
66 TCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT-CCT-TGACTA
**
33716578 CAGT
129 CAAA
33716582 GGAGTACATTGAAGCCGATACCTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
1 GGAGTACATTGAAGCCGATACCTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
33716647 TCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCTTGACTACA
66 TCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCTTGACTACA
33716712 AA
131 AA
*
33716714 GGAGTACATTGAAGCCGATAACTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
1 GGAGTACATTGAAGCCGATACCTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
33716779 TCTTGCCTTCCT
66 TCTTGCCTTCCT
33716791 NNNNNNNNNN
Statistics
Matches: 202, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
132 84 0.42
133 3 0.01
134 115 0.57
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (132 bp):
GGAGTACATTGAAGCCGATACCTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGA
TCTTGCCTTCCTATATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCTTGACTACA
AA
Found at i:33719524 original size:89 final size:90
Alignment explanation
Indices: 33719424--33719588 Score: 219
Period size: 89 Copynumber: 1.8 Consensus size: 90
33719414 TTAGGGCTTG
* * * * *
33719424 AATTTGATTGTGATAATGGT-GGCAATGTGTTCA-TCGTTTAAAAGTATGATTGTGATTAG-TAT
1 AATTTGATTGTGACAATGGTAGGAAAT-TGTGCAGT-GTTTAAAAGTATGACTGTGATCAGTTAT
33719486 ATTGTTTAAAAGTGTGATTTAGACTCA
64 ATTGTTTAAAAGTGTGATTTAGACTCA
* * *
33719513 AATTTGATTGTGACAGTGGTAGTAAATTGTGCAGTGTTTAAAAGTGTGACTGTGATCAGTTATAT
1 AATTTGATTGTGACAATGGTAGGAAATTGTGCAGTGTTTAAAAGTATGACTGTGATCAGTTATAT
33719578 TGTTTAAAAGT
66 TGTTTAAAAGT
33719589 ACGATTTGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
89 44 0.68
90 21 0.32
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (90 bp):
AATTTGATTGTGACAATGGTAGGAAATTGTGCAGTGTTTAAAAGTATGACTGTGATCAGTTATAT
TGTTTAAAAGTGTGATTTAGACTCA
Found at i:33719623 original size:90 final size:87
Alignment explanation
Indices: 33719529--33719811 Score: 244
Period size: 90 Copynumber: 3.3 Consensus size: 87
33719519 ATTGTGACAG
* *
33719529 TGGTAGTAAATTGTGCAGTGTTTAAAAGTGTGACTGTGATCAGTTATATTGTTTAAAAGTACGAT
1 TGGTAGCAAATTGTGCATTGTTT-AAAG-GTGA-TGTGATCAGTTATATTGTTTAAAAGTACGAT
*
33719594 TTGGGATTGAATTC-AATCATGATAA
63 TTGGGATTGAATTCGAA-CACGATAA
* * * * * *
33719619 TGGTAGCGAATTGTGCATTATTTAAAGGT-ATG-GATGCA--AATAGTGATT---GGTACGATTT
1 TGGTAGCAAATTGTGCATTGTTTAAAGGTGATGTGAT-CAGTTATATTGTTTAAAAGTACGATTT
33719677 GGGATTGAATTCGAACACGATAA
65 GGGATTGAATTCGAACACGATAA
* * * * *
33719700 TGGTAGCAAATTATGCATTGTTTGAAGGCATGGTTGTGATTAGTTATATTGTTTAAAAGTAAGAT
1 TGGTAGCAAATTGTGCATTGTTTAAAGG--T-GATGTGATCAGTTATATTGTTTAAAAGTACGAT
* *
33719765 TTGGGATTGAATAT-GATCATTGAT-A
63 TTGGGATTGAAT-TCGAACA-CGATAA
* *
33719790 TGGTGGCGAATTGTGCATTGTT
1 TGGTAGCAAATTGTGCATTGTT
33719812 GATTCGTTAT
Statistics
Matches: 154, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
81 52 0.34
82 2 0.01
83 1 0.01
84 7 0.05
85 6 0.04
86 7 0.05
87 8 0.05
88 2 0.01
89 4 0.03
90 61 0.40
91 4 0.03
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (87 bp):
TGGTAGCAAATTGTGCATTGTTTAAAGGTGATGTGATCAGTTATATTGTTTAAAAGTACGATTTG
GGATTGAATTCGAACACGATAA
Found at i:33727735 original size:3 final size:3
Alignment explanation
Indices: 33727727--33727793 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
33727717 TAGCATTTTC
* *
33727727 ATT ATT ATT ATT ATT -TT CATT ATT -TT AAT AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
**
33727771 ATT ATT ATT ACC ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
33727794 AATTGCTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.89
4 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:33727827 original size:21 final size:21
Alignment explanation
Indices: 33727803--33727843 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33727793 TAATTGCTCT
*
33727803 TATATATATTTTATATATATG
1 TATACATATTTTATATATATG
*
33727824 TATACATATTTTTTATATAT
1 TATACATATTTTATATATAT
33727844 ACTCACGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TATACATATTTTATATATATG
Found at i:33728740 original size:110 final size:110
Alignment explanation
Indices: 33728547--33729070 Score: 1048
Period size: 110 Copynumber: 4.8 Consensus size: 110
33728537 AAAGAAAATT
33728547 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
33728612 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
66 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
33728657 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
33728722 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
66 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
33728767 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
33728832 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
66 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
33728877 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
33728942 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
66 TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
33728987 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
33729052 TCAATTTTTCTCATTCAAC
66 TCAATTTTTCTCATTCAAC
33729071 TAATCAACTA
Statistics
Matches: 414, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 414 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (110 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TCAATTTTTCTCATTCAACCAAATGGCTTAATATCTTTTTAAAAA
Found at i:33734339 original size:98 final size:102
Alignment explanation
Indices: 33734218--33734411 Score: 236
Period size: 102 Copynumber: 1.9 Consensus size: 102
33734208 GCACCAAAAT
*
33734218 TTTTTTTATTGAATTTAGGGCCTCCACATGAAGA-GAG-CA-CTGAAAAA-TTCAAA-AAAAAAT
1 TTTTTTTATTGAATTTAGGGCCTCCACATGAAAATGAGACATC-GAAAAATTTCAAATAAAAAAT
*
33734278 GTTGGTGCCGCCACATTTGGAGTTGGCACTAGGGGGAA
65 GCTGGTGCCGCCACATTTGGAGTTGGCACTAGGGGGAA
** * * * * * * *
33734316 TTTTTTTATTGGTTTTCGTGCCTCTACATGAAAATGTGACATCGAAAAATTTTAAATTAAAATTG
1 TTTTTTTATTGAATTTAGGGCCTCCACATGAAAATGAGACATCGAAAAATTTCAAATAAAAAATG
*
33734381 CTGGTGTCGCCACATTTGGAGTTGGCACTAG
66 CTGGTGCCGCCACATTTGGAGTTGGCACTAG
33734412 AAAAATAAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
98 28 0.35
99 2 0.03
100 8 0.10
101 6 0.08
102 35 0.44
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (102 bp):
TTTTTTTATTGAATTTAGGGCCTCCACATGAAAATGAGACATCGAAAAATTTCAAATAAAAAATG
CTGGTGCCGCCACATTTGGAGTTGGCACTAGGGGGAA
Found at i:33735585 original size:16 final size:17
Alignment explanation
Indices: 33735564--33735609 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
33735554 GGCAATGTGT
33735564 TGATTGTTTAAAAG-TA
1 TGATTGTTTAAAAGTTA
* **
33735580 TGATTGTTCATTAGTTA
1 TGATTGTTTAAAAGTTA
33735597 T-ATTGTTTAAAAG
1 TGATTGTTTAAAAG
33735610 GGTGATTTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (17 bp):
TGATTGTTTAAAAGTTA
Found at i:33743864 original size:34 final size:34
Alignment explanation
Indices: 33743819--33743908 Score: 135
Period size: 34 Copynumber: 2.6 Consensus size: 34
33743809 ACTTATACAA
33743819 ATATCATATCAGAATGTCATATTACCAAAAACAT
1 ATATCATATCAGAATGTCATATTACCAAAAACAT
* * **
33743853 ATATCAGATCAGAATGTCATATTTCCAAATGCAT
1 ATATCATATCAGAATGTCATATTACCAAAAACAT
*
33743887 ATATCATATCAGGATGTCATAT
1 ATATCATATCAGAATGTCATAT
33743909 CAAATCAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTACCAAAAACAT
Found at i:33747458 original size:882 final size:874
Alignment explanation
Indices: 33745557--33747506 Score: 2356
Period size: 876 Copynumber: 2.2 Consensus size: 874
33745547 GGCCGTGTAA
* * * * *
33745557 CTCTATTTTATTTTTAATATTATTTTAT-TCTATTTATTTTCCTTTTATTTTTCAAGTATAGCAG
1 CTCT-TTTTATTTTTAATAATATTTTATGGCCATTTATTTTCCTTTTATTTTGCAAGTATAGCAA
* * * * *
33745621 TTCCTCCTTCTACAGGTTTTACAAGTAAAGTAAGTAGGCAAACATCATATTAGAAACCTATAATG
65 TT--TTCTTCTACAGG-TTTACAAGCAAAGTAGGAAGGCAAACATCATA-TAGGAACCTATAATG
* *
33745686 GTTGGGTAGACATAGAAGAATGATGTGACATTAGAATTGATAACCCATCTTCACCACACAATATT
126 GTCGGGTAGACATAGAAGAATGATGTGACATTAGAATTGATAACCCATCTCCACCACACAATATT
* * *
33745751 CACCGCCGATGTTGGTCTATTCAATAGGCCTTACCTTCAAAAGTACTTGTTATTGGCACATCGGT
191 CACCGCCAATATTGGTATATTCAATAGGCCTTACCTTCAAAAGTACTTGTTATTGGCACATCGGT
* * * *
33745816 TCGCAATCCTTCTAGCGAAATCAATTTTATTTCTAATTTGAAGTTTCTTTACTATTTTGAAATTT
256 TCGCAATCATTCTAGCGAAATAAATTTTATTTCTAATTTGAAGATTCTTTACAATTTTGAAATTT
* * * *
33745881 AGTCCCTTTTAGTATTATATAGTTAAATAGTGTAATCACCCCTCGAATATTAATTGACGTACTGT
321 AGTCCCTTTTAGTACTAGATAGTTAAATAGTGTAATCACCCCTCGAATATAAATTGACGTACTAT
*
33745946 AATATGTAGTGAGTAGCTAGCTAGACTTATTGTTTACATGCATTTTCATTGTTAATCACCTTATC
386 AATATGTAGTGAGTAGCTAGCTAGACTTATTGTTTACATGCATCTTCATTGTTAATCACCTTATC
* * * *
33746011 ACCCGAACTCTTTTGGGTTAGATCATTGGAATACTCGAAGTGTTCTATTCTGACAATAAAAATTA
451 ACCCGAACTCTCTTGGGTTAGATCATTGGAATACTCGAAGTGTTCCATTCTAACAATAAAAAATA
* *
33746076 TTACTTTTCACACTAGCAGACACCACTACATTTATAATTGTGTTGATTCATAGTCTTGACGCAAG
516 TTACTTTTCACACTAGCAGACACAACTACATTTATAATTGTGTTGATTCATACTCTTGACGCAAG
** * *
33746141 CACGGTGGGGTGCGATCAATATCCTTTATTAATTAATTAAAATTTTAAATGTTATAATATGCTAG
581 CACGGCAGGGCGCAATCAATATCCTTTATTAA-TAATTAAAATTTTAAATGTTATAATATGCTAG
* * * ** * * *
33746206 AATAGCTCAGTTGGTTAGAGTGTGTGGCTGTTAACTATAAGTTTGAAGGTTCAAACCCTTCTTCT
645 AACAACTCAGTTAGTTAGAGCATGTGGCTGTTAACCAAAAGTTCGAAGGTTCAAACCCTTCTTCT
** * *
33746271 AGTGAAATTAATTTTATTTTTAAATTGGACACTCTTTAGTGTTTCAACTTTGCTCTTTTTTCTCA
710 AGCAAAATTAATTTTATTTTTAAATTGAACACTCTTTAGTGTTTCAACGTTGCTCTTTTTTCTCA
* * * * *
33746336 CTTTTATTATTAATAATGTTTTTATTTTTGGCCCTTTTACTAGAAAAATATTTTTTCTTTTATAA
775 ATTTTATTATTAATAATATCTTTATTTTTGGCCCTTTTACTAGAAAAATAATTTTTCATTTATAA
* *
33746401 TTTGAACCTTCTTTAATGTTTTGGTGTTGCTATTT
840 TTTGAACCTTCTTTAATGGTTTGGTGTTGCTAGTT
* * *
33746436 CTCTTTTTATTTTTAATAATATTTTATGGCCATTTATTTTCCCTTTGTTTTGCTAA-TATAACAA
1 CTCTTTTTATTTTTAATAATATTTTATGGCCATTTATTTTCCTTTTATTTTGC-AAGTATAGCAA
* * * * *
33746500 -TTTCTCCTCCAAGTTTACAAGCAATGTAGGAAGGCAAACATCATATTGGAAACCTATAATGGTC
65 TTTTCTTCTACAGGTTTACAAGCAAAGTAGGAAGGCAAACATCATATAGG-AACCTATAATGGTC
* * * *
33746564 GGGTACACATAGAAGAATGATGTGACATCAGTATTGATAACCCATCTCCACCACACAATATTTAC
129 GGGTAGACATAGAAGAATGATGTGACATTAGAATTGATAACCCATCTCCACCACACAATATTCAC
* ** * * **
33746629 TGCCAATATTGGTATATTCTGTAGGCCTTACCTTTACAAGTA-TTGGTTATTGGCATGTCGGTTC
194 CGCCAATATTGGTATATTCAATAGGCCTTACCTTCAAAAGTACTT-GTTATTGGCACATCGGTTC
* *
33746693 -CAATCATTCTAGTGAAATAAATTTTATTTCTAATTTTAAGATTCTTTACAATTTTGAAATTTAG
258 GCAATCATTCTAGCGAAATAAATTTTATTTCTAATTTGAAGATTCTTTACAATTTTGAAATTTAG
** * * * * **
33746757 TCTTTTTTTTTGTGCTAGATAGTTAAATAGTGTAATCATCCCTTGAATATAAATTTCCGTACTAT
323 TC--CCTTTTAGTACTAGATAGTTAAATAGTGTAATCACCCCTCGAATATAAATTGACGTACTAT
* * * * * *
33746822 AATATTTAGTGAGTAGCTAGCTAGGCTTCTTGTTTGCATGTATCTTCATTGTTAATCACTTTATC
386 AATATGTAGTGAGTAGCTAGCTAGACTTATTGTTTACATGCATCTTCATTGTTAATCACCTTATC
* * * * *
33746887 ACCCGAACTCTCTTGGGTTTGATCCTTGGAATATTGGAAGTGTTCCATTCTAACACTAAAAAAAT
451 ACCCGAACTCTCTTGGGTTAGATCATTGGAATACTCGAAGTGTTCCATTCTAACAAT-AAAAAAT
* * * * *
33746952 ATTACATCTAACCTGTCATACTTGCATA-ACAAGTTATATTTATAATTATATTTGTGTTGATTCA
515 ATTAC-T-T----T-TCACACTAGCAGACACAA-CTACA-TT-T-A-TA-A-TTGTGTTGATTCA
* * * * * *
33747016 TAC-CTCTGACGCACGCATGGCAGGGCGCAATCAATATGCTTTA-T-A-AATTTAATTTTTAAGT
566 TACTCT-TGACGCAAGCACGGCAGGGCGCAATCAATATCCTTTATTAATAATTAAAATTTTAAAT
* *
33747077 GTTATAATATGCTAGAACAACTCAGTTAGTTAGAGCATGTGGTTGTTAACCACAAAG-TCGAATG
630 GTTATAATATGCTAGAACAACTCAGTTAGTTAGAGCATGTGGCTGTTAACCA-AAAGTTCGAAGG
** * * *
33747141 TTTGAA-CC-TCTTTCTAGCAAAATTAATTTTATTTTTAATTTGAACCCTTTTTAGTGTTTCAAC
694 TTCAAACCCTTC-TTCTAGCAAAATTAATTTTATTTTTAAATTGAACACTCTTTAGTGTTTCAAC
* * *
33747204 GTTGCTC-TTTTTCTCAATTTTATTATTCATATTATCTTTGTTTTTGGCCCTCTTT-CTAGAAAA
758 GTTGCTCTTTTTTCTCAATTTTATTATTAATAATATCTTTATTTTTGGCCCT-TTTACTAGAAAA
* *
33747267 ATAAATTTTT-ATTTCTAATTTGAACTTTCTTTAATGGTTTGGTGTTGCT-GTT
822 AT-AATTTTTCATTTATAATTTGAACCTTCTTTAATGGTTTGGTGTTGCTAGTT
*
33747319 CTC-TTTTATTTTTAATAATATTTTCTGGCCATTTATTTTCCTTTTATTTTGCAAGTATAGCAAT
1 CTCTTTTTATTTTTAATAATATTTTATGGCCATTTATTTTCCTTTTATTTTGCAAGTATAGCAAT
* *
33747383 TGTTCTTCT-C-GGTTTACAAGCAAGGTAGGAAGGCAAACATCATAGTAGGAACCTATAATAGTC
66 T-TTCTTCTACAGGTTTACAAGCAAAGTAGGAAGGCAAACATCATA-TAGGAACCTATAATGGTC
* * * *
33747446 GGGTAGACATAGAAGAATGATGTGACATTAGCATTGATATCGCATATCCACCACACAATAT
129 GGGTAGACATAGAAGAATGATGTGACATTAGAATTGATAACCCATCTCCACCACACAATAT
33747507 GCATCATTGA
Statistics
Matches: 910, Mismatches: 131, Indels: 57
0.83 0.12 0.05
Matches are distributed among these distances:
874 64 0.07
875 152 0.17
876 164 0.18
877 11 0.01
878 24 0.03
879 31 0.03
880 2 0.00
881 2 0.00
882 153 0.17
883 14 0.02
884 104 0.11
885 65 0.07
886 68 0.07
887 4 0.00
888 3 0.00
889 4 0.00
890 45 0.05
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (874 bp):
CTCTTTTTATTTTTAATAATATTTTATGGCCATTTATTTTCCTTTTATTTTGCAAGTATAGCAAT
TTTCTTCTACAGGTTTACAAGCAAAGTAGGAAGGCAAACATCATATAGGAACCTATAATGGTCGG
GTAGACATAGAAGAATGATGTGACATTAGAATTGATAACCCATCTCCACCACACAATATTCACCG
CCAATATTGGTATATTCAATAGGCCTTACCTTCAAAAGTACTTGTTATTGGCACATCGGTTCGCA
ATCATTCTAGCGAAATAAATTTTATTTCTAATTTGAAGATTCTTTACAATTTTGAAATTTAGTCC
CTTTTAGTACTAGATAGTTAAATAGTGTAATCACCCCTCGAATATAAATTGACGTACTATAATAT
GTAGTGAGTAGCTAGCTAGACTTATTGTTTACATGCATCTTCATTGTTAATCACCTTATCACCCG
AACTCTCTTGGGTTAGATCATTGGAATACTCGAAGTGTTCCATTCTAACAATAAAAAATATTACT
TTTCACACTAGCAGACACAACTACATTTATAATTGTGTTGATTCATACTCTTGACGCAAGCACGG
CAGGGCGCAATCAATATCCTTTATTAATAATTAAAATTTTAAATGTTATAATATGCTAGAACAAC
TCAGTTAGTTAGAGCATGTGGCTGTTAACCAAAAGTTCGAAGGTTCAAACCCTTCTTCTAGCAAA
ATTAATTTTATTTTTAAATTGAACACTCTTTAGTGTTTCAACGTTGCTCTTTTTTCTCAATTTTA
TTATTAATAATATCTTTATTTTTGGCCCTTTTACTAGAAAAATAATTTTTCATTTATAATTTGAA
CCTTCTTTAATGGTTTGGTGTTGCTAGTT
Found at i:33751320 original size:27 final size:27
Alignment explanation
Indices: 33751272--33751474 Score: 183
Period size: 27 Copynumber: 7.5 Consensus size: 27
33751262 AGTACTGAGA
* **
33751272 CCCTCATAGGGTAAAATAACCGTAATGT
1 CCCT-ATAGGGTAAAATGACCGTAATAC
*
33751300 CCCTATAAGGTAAAATGACCGTAATAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* *
33751327 CCCTATAGGGTAAAATGACAG-AAAAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* * *
33751353 CCCCATAGGGTAAAATGATCGTAATGC
1 CCCTATAGGGTAAAATGACCGTAATAC
*
33751380 CCCTGTAGGGTAAAATGACCGTAATAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* * * * **
33751407 CCCCACAGGGTTAAATAACCAAAATAC
1 CCCTATAGGGTAAAATGACCGTAATAC
* * * * *
33751434 CCCTGTAAGGTAAATTGATCGTAATGC
1 CCCTATAGGGTAAAATGACCGTAATAC
* *
33751461 TCCTAAAGGGTAAA
1 CCCTATAGGGTAAA
33751475 GGATTATTTT
Statistics
Matches: 136, Mismatches: 38, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
26 22 0.16
27 110 0.81
28 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
CCCTATAGGGTAAAATGACCGTAATAC
Found at i:33751409 original size:80 final size:81
Alignment explanation
Indices: 33751271--33751474 Score: 241
Period size: 80 Copynumber: 2.5 Consensus size: 81
33751261 AAGTACTGAG
* * * * * * *
33751271 ACCCTCATAGGGTAAAATAACCGTAATGTCCCTATAAGGTAAAATGACCGTAATACCCCTATAGG
1 ACCCCCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCCACAGG
*
33751336 GTAAAATGA-CAGAAA-
66 GTAAAATAACCA-AAAT
*
33751351 ACCCCCATAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCCACAGG
1 ACCCCCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCCACAGG
*
33751416 GTTAAATAACCAAAAT
66 GTAAAATAACCAAAAT
** * * * *
33751432 ACCCCTGTAAGGTAAATTGATCGTAATGCTCCTAAAGGGTAAA
1 ACCCCCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAA
33751475 GGATTATTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 67 0.64
81 38 0.36
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (81 bp):
ACCCCCATAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCCCACAGG
GTAAAATAACCAAAAT
Found at i:33751525 original size:24 final size:24
Alignment explanation
Indices: 33751497--33751544 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33751487 CCCAGGAGTG
*
33751497 TAAATGTCTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
33751521 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
33751545 GGTATAACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:33751554 original size:24 final size:24
Alignment explanation
Indices: 33751504--33751560 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
33751494 GTGTAAATGT
* *
33751504 CTGATTTGTCTGTGATTTAAATGA
1 CTGATTTGTCTGTGATTGAAATAA
**
33751528 CTGATTTGTCTGTGATTGGTATAA
1 CTGATTTGTCTGTGATTGAAATAA
33751552 CTGATTTGT
1 CTGATTTGT
33751561 ATGACTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (24 bp):
CTGATTTGTCTGTGATTGAAATAA
Found at i:33751715 original size:26 final size:26
Alignment explanation
Indices: 33751686--33751738 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
33751676 TTGGCCATAT
* *
33751686 TACTTTTACGGGCAGCTTTGCTGCGA
1 TACTGTTACCGGCAGCTTTGCTGCGA
* *
33751712 TACTGTTGCCGGTAGCTTTGCTGCGA
1 TACTGTTACCGGCAGCTTTGCTGCGA
33751738 T
1 T
33751739 GCTATTGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.13, C:0.23, G:0.28, T:0.36
Consensus pattern (26 bp):
TACTGTTACCGGCAGCTTTGCTGCGA
Found at i:33751785 original size:32 final size:32
Alignment explanation
Indices: 33751744--33751911 Score: 203
Period size: 32 Copynumber: 5.3 Consensus size: 32
33751734 GCGATGCTAT
* *
33751744 TGATGGCTTTGTACCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
** * *
33751776 TGATGGCTTTGTGTTGATCATATTATCATTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
33751808 TGATGGCTTTGTGCCGATCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * * *
33751840 TGATGGCTTTATGCCGATCATATCACTGCTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * *
33751872 TGATGGCTTTGTGCCAATAATATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
33751903 TTATGGCTT
1 TGATGGCTT
33751912 GTAGCCATTC
Statistics
Matches: 117, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 11 0.09
32 106 0.91
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACCGTTAC
Found at i:33757064 original size:324 final size:324
Alignment explanation
Indices: 33756453--33757087 Score: 836
Period size: 324 Copynumber: 2.0 Consensus size: 324
33756443 GGTGTTGCTA
* **
33756453 TTTCTCTTTTATTTTTAATAATAATTTTTGGCCATTTATTTTTCCTTTATTTTTGCAAGTATAGT
1 TTTCTCTTTTATTTTTAATAAT-ATTTTTGGCCATTTATTTTCCCTTTATTTTTGCAAGTATAAC
* * * *
33756518 AGTTCCTTCCCCAGGTTCACAAGAAAAGTAGGAAGGCAGACATCATAGTAGGAACCTATAATGGT
65 AATTCCTTCCCCAGGTTCACAAGAAAAGAAGGAAGGCAAACATCATAGTAGAAACCTATAATGGT
* * *
33756583 CGAGTAAACACAAAATAATGATGTGACATTAGTATTTATAACCCCTCTCAACCACACAATATTCA
130 CGAGTAAACACAAAATAATGATGTGACATTAGTATTGATAACCCATCTCAACCACACAATAGTCA
* * * *
33756648 TCGTCAATGTTGGTCTATTCTGTAGGCCTTATCTTCACAAGTACTTGTTATTAGTATGTCGGTTC
195 TCGTCAATGTTGGTCTATTCTGTAAGCCTTACCTTCACAAGTACTTGTTATTAGCATGTCGATTC
*
33756713 ACAATTTTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTT-TATTTACTATTTCACATTGCC
260 ACAATCTTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTTCT-TTTACTATTTCACATTGCC
33756777 T
324 T
* *
33756778 TTTCTCTTTTA-TTTTAAT-AT-TTTTTTGTCATTTATTTTCCCTTTCA-TTTTGCAAGTATAAC
1 TTTCTCTTTTATTTTTAATAATATTTTTGGCCATTTATTTTCCCTTT-ATTTTTGCAAGTATAAC
** * *
33756839 AATTCCTCATTCTTCAGGTTTACAAGTAAAA-AAGGAAGGTAAACATCATAGTAGAAACCTATAA
65 AATT-C-C-TTCCCCAGGTTCACAAG-AAAAGAAGGAAGGCAAACATCATAGTAGAAACCTATAA
* * *
33756903 TGGTCGGGTAAACACAGAAA-AATGATGTGACATTAGTATTGATAACCCATCTCCACCACACTAT
126 TGGTCGAGTAAACACA-AAATAATGATGTGACATTAGTATTGATAACCCATCTCAACCACACAAT
* * * * *
33756967 AGTCA-CTGTCGATGTTGGTTTATTTTGTAAGTCTTACCTTCACAAGTACTTGTTATTGGCATGT
190 AGTCATC-GTCAATGTTGGTCTATTCTGTAAGCCTTACCTTCACAAGTACTTGTTATTAGCATGT
* * **
33757031 TGATTCACAATCTTTCTAGCGAAATTTATTTTATTTCTAATTTGAACTTCTTTTACT
254 CGATTCACAATCTTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTTCTTTTACT
33757088 GTTTTGAAAT
Statistics
Matches: 269, Mismatches: 33, Indels: 17
0.84 0.10 0.05
Matches are distributed among these distances:
321 37 0.14
322 2 0.01
323 4 0.01
324 207 0.77
325 19 0.07
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (324 bp):
TTTCTCTTTTATTTTTAATAATATTTTTGGCCATTTATTTTCCCTTTATTTTTGCAAGTATAACA
ATTCCTTCCCCAGGTTCACAAGAAAAGAAGGAAGGCAAACATCATAGTAGAAACCTATAATGGTC
GAGTAAACACAAAATAATGATGTGACATTAGTATTGATAACCCATCTCAACCACACAATAGTCAT
CGTCAATGTTGGTCTATTCTGTAAGCCTTACCTTCACAAGTACTTGTTATTAGCATGTCGATTCA
CAATCTTTCTAGCAAAATCAATTTTATTTCTAATTTGAACTTCTTTTACTATTTCACATTGCCT
Found at i:33767159 original size:29 final size:29
Alignment explanation
Indices: 33767117--33767172 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
33767107 ACAGCAGAAC
33767117 AGGGGTAAGTTTGAAGATTTTACTATAAT
1 AGGGGTAAGTTTGAAGATTTTACTATAAT
33767146 AGGGGTAAGTTTGAAGATTTTACTATA
1 AGGGGTAAGTTTGAAGATTTTACTATA
33767173 GTTATTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (29 bp):
AGGGGTAAGTTTGAAGATTTTACTATAAT
Found at i:33769585 original size:12 final size:12
Alignment explanation
Indices: 33769565--33769595 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33769555 TCAGTAGCTT
*
33769565 CACATGGCCTAG
1 CACACGGCCTAG
33769577 CACACGGCCTAG
1 CACACGGCCTAG
33769589 CACACGG
1 CACACGG
33769596 GCGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:33774318 original size:22 final size:22
Alignment explanation
Indices: 33774269--33774311 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33774259 CCATGGATGT
* *
33774269 ATTATGCTAATATAATTGATTG
1 ATTATGCCAATATAATTGAATG
33774291 ATTATGCCAATATAATTGAAT
1 ATTATGCCAATATAATTGAAT
33774312 ATTTATGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (22 bp):
ATTATGCCAATATAATTGAATG
Found at i:33777128 original size:15 final size:17
Alignment explanation
Indices: 33777093--33777132 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
33777083 TGTGGCTGGC
33777093 GTGTGCACCACACGGGT
1 GTGTGCACCACACGGGT
33777110 GTGTGCACCACACGGGT
1 GTGTGCACCACACGGGT
33777127 GTGTGC
1 GTGTGC
33777133 GATTACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (17 bp):
GTGTGCACCACACGGGT
Found at i:33782908 original size:19 final size:18
Alignment explanation
Indices: 33782870--33782920 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
33782860 TTTTTTCTCA
* *
33782870 CTATTGTTATTATTTTAT
1 CTATTATTATTATATTAT
33782888 CTATTATTATTATCATTAT
1 CTATTATTATTAT-ATTAT
*
33782907 CTATTTTTATTATA
1 CTATTATTATTATA
33782921 AATTGCACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (18 bp):
CTATTATTATTATATTAT
Found at i:33783121 original size:12 final size:12
Alignment explanation
Indices: 33783106--33783130 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33783096 TTATCATTGC
33783106 TATTATTTATTT
1 TATTATTTATTT
33783118 TATTATTTATTT
1 TATTATTTATTT
33783130 T
1 T
33783131 TTCCTTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:33784461 original size:21 final size:21
Alignment explanation
Indices: 33784437--33784487 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
33784427 AATAACACGC
33784437 CCGTGTGACAAAGGCAAACGA
1 CCGTGTGACAAAGGCAAACGA
*
33784458 CCGTGTGACAAAGGCACACGA
1 CCGTGTGACAAAGGCAAACGA
33784479 CCGTGTGAC
1 CCGTGTGAC
33784488 TGGAAGACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.29, T:0.12
Consensus pattern (21 bp):
CCGTGTGACAAAGGCAAACGA
Found at i:33789609 original size:10 final size:10
Alignment explanation
Indices: 33789594--33789623 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
33789584 AGTACATATC
33789594 AATCACATTT
1 AATCACATTT
*
33789604 AATCACATTC
1 AATCACATTT
33789614 AATCACATTT
1 AATCACATTT
33789624 TATGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (10 bp):
AATCACATTT
Found at i:33792097 original size:10 final size:10
Alignment explanation
Indices: 33792082--33792111 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
33792072 AGTACATATC
33792082 AATCACATTT
1 AATCACATTT
*
33792092 AATCACATTC
1 AATCACATTT
33792102 AATCACATTT
1 AATCACATTT
33792112 TATGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (10 bp):
AATCACATTT
Found at i:33794339 original size:221 final size:226
Alignment explanation
Indices: 33793930--33794342 Score: 599
Period size: 221 Copynumber: 1.8 Consensus size: 226
33793920 AAAACCTGAC
* ** *
33793930 CAAATCCTCATATTTCAAACCACTAGAACCACATATACCAACTGTCCTCAATGTTAGGACTCTAT
1 CAAATCCTCATATGTCAAACCACTAGAACCACATATACCAACCATCCTCAATGTTAGGAATCTAT
*
33793995 CCCCCATCAAACTCTTCTAATATTCAGTAACCACTATCCCCCCTCAACACACAATCCTTCTTTAC
66 CCCCCATCAAACTCTTCTAATATTCAG--ACCACTATCCCCCCTCAACACACAACCCTTCTTTAC
*
33794060 ACTCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGTACATAAAAAGAAAAGAAAGAAACAAA
129 ACTCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGGACATAAAAAGAAAAGAAAGAAACAAA
33794125 AAAAAAAACCTACTTGACTTTGAAATGAAAGAG
194 AAAAAAAACCTACTTGACTTTGAAATGAAAGAG
*
33794158 CAAATCCTCAT-TCGTCAAA-CACTAGAACCACATATATCAACCAT-CTCCAATGTT-GGAAATC
1 CAAATCCTCATAT-GTCAAACCACTAGAACCACATATACCAACCATCCT-CAATGTTAGG-AATC
* * * *
33794219 TA-GCCCCATCAAACTTTTCTACTATTCAG-CC-C-ATCCCCCCTCAACCCACAACCCTTCTTTA
63 TATCCCCCATCAAACTCTTCTAATATTCAGACCACTATCCCCCCTCAACACACAACCCTTCTTTA
* * *
33794280 CACTCGAAACCAACTCAAGCTCGACAATCATACAAGAAGGGCATACAAAGAAAAGAAAGAAAC
128 CACTCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGGACATAAAAAGAAAAGAAAGAAAC
33794343 CAAATAATAA
Statistics
Matches: 168, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
221 86 0.51
222 1 0.01
223 2 0.01
226 28 0.17
227 35 0.21
228 16 0.10
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (226 bp):
CAAATCCTCATATGTCAAACCACTAGAACCACATATACCAACCATCCTCAATGTTAGGAATCTAT
CCCCCATCAAACTCTTCTAATATTCAGACCACTATCCCCCCTCAACACACAACCCTTCTTTACAC
TCGAAACCAACTCAAGCTCGAAAATCATACAAGAAGGACATAAAAAGAAAAGAAAGAAACAAAAA
AAAAAACCTACTTGACTTTGAAATGAAAGAG
Found at i:33806288 original size:19 final size:19
Alignment explanation
Indices: 33806264--33806372 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
33806254 AATCATATAT
33806264 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
33806283 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
33806302 --TGAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33806319 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
33806338 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33806357 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
33806373 CTCAAAAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.17
19 66 0.82
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33806309 original size:36 final size:37
Alignment explanation
Indices: 33806268--33806372 Score: 158
Period size: 36 Copynumber: 2.8 Consensus size: 37
33806258 ATATATTCTA
*
33806268 AGATTGCATATCATATCTAAGATTATATATCATAT-G
1 AGATTGCATATCATATCTAAGATTACATATCATATCG
* *
33806304 AGATTGCATATCATATCTAAGATTGCATATCATATCT
1 AGATTGCATATCATATCTAAGATTACATATCATATCG
*
33806341 AGGATTGCATATCATATCTAAGATTGCATATC
1 A-GATTGCATATCATATCTAAGATTACATATC
33806373 CTCAAAAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 33 0.52
37 1 0.02
38 30 0.47
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (37 bp):
AGATTGCATATCATATCTAAGATTACATATCATATCG
Found at i:33806325 original size:55 final size:55
Alignment explanation
Indices: 33806257--33806372 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 55
33806247 ATTACAAAAT
* *
33806257 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATA-TGAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATACTAAGATTG
* *
33806310 CATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGCATATCATATCTAAGATTACATATCATA-CTAAGATTG
33806367 CATATC
1 CATATC
33806373 CTCAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 5 0.09
54 2 0.04
55 35 0.64
57 13 0.24
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (55 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATACTAAGATTG
Found at i:33809557 original size:239 final size:240
Alignment explanation
Indices: 33809128--33809606 Score: 951
Period size: 239 Copynumber: 2.0 Consensus size: 240
33809118 TTTGTAATTT
33809128 ATAACACATAAAAAAAAATAAACATGTACTAAATATATAATACTACTCTAATATAAACATTAAAA
1 ATAACACATAAAAAAAAATAAACATGTACTAAATATATAATACTACTCTAATATAAACATTAAAA
33809193 TAATGTTAAAATGACTATAAAATAAATAAATAATTTTAATTTATTAAATATTTAATTAAAATAAT
66 TAATGTTAAAATGACTATAAAATAAATAAATAATTTTAATTTATTAAATATTTAATTAAAATAAT
33809258 ATAAAATTTTAAAAAATTAAAATAATATGGGGGGCTAAAATGGGCTTGGGTTAGTCTTTTGCAAA
131 ATAAAATTTTAAAAAATTAAAATAATATGGGGGGCTAAAATGGGCTTGGGTTAGTCTTTTGCAAA
33809323 TATGGGTGAGCTTAGGCAAAATTTTAGGCTTATATTTCTGGCTGG
196 TATGGGTGAGCTTAGGCAAAATTTTAGGCTTATATTTCTGGCTGG
33809368 ATAACACAT-AAAAAAAATAAACATGTACTAAATATATAATACTACTCTAATATAAACATTAAAA
1 ATAACACATAAAAAAAAATAAACATGTACTAAATATATAATACTACTCTAATATAAACATTAAAA
33809432 TAATGTTAAAATGACTATAAAATAAATAAATAATTTTAATTTATTAAATATTTAATTAAAATAAT
66 TAATGTTAAAATGACTATAAAATAAATAAATAATTTTAATTTATTAAATATTTAATTAAAATAAT
33809497 ATAAAATTTTAAAAAATTAAAATAATATGGGGGGCTAAAATGGGCTTGGGTTAGTCTTTTGCAAA
131 ATAAAATTTTAAAAAATTAAAATAATATGGGGGGCTAAAATGGGCTTGGGTTAGTCTTTTGCAAA
33809562 TATGGGTGAGCTTAGGCAAAATTTTAGGCTTATATTTCTGGCTGG
196 TATGGGTGAGCTTAGGCAAAATTTTAGGCTTATATTTCTGGCTGG
33809607 GCAAGGCTTA
Statistics
Matches: 239, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
239 230 0.96
240 9 0.04
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (240 bp):
ATAACACATAAAAAAAAATAAACATGTACTAAATATATAATACTACTCTAATATAAACATTAAAA
TAATGTTAAAATGACTATAAAATAAATAAATAATTTTAATTTATTAAATATTTAATTAAAATAAT
ATAAAATTTTAAAAAATTAAAATAATATGGGGGGCTAAAATGGGCTTGGGTTAGTCTTTTGCAAA
TATGGGTGAGCTTAGGCAAAATTTTAGGCTTATATTTCTGGCTGG
Found at i:33812021 original size:34 final size:34
Alignment explanation
Indices: 33811978--33812046 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
33811968 AATATTTTTG
33811978 AACTTCCCACCTAAGACCATTATAACATGACCAA
1 AACTTCCCACCTAAGACCATTATAACATGACCAA
33812012 AACTTCCCACCTAAGACCATTATAACATGACCAA
1 AACTTCCCACCTAAGACCATTATAACATGACCAA
33812046 A
1 A
33812047 TTAACTCGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.20
Consensus pattern (34 bp):
AACTTCCCACCTAAGACCATTATAACATGACCAA
Found at i:33812902 original size:30 final size:30
Alignment explanation
Indices: 33812866--33812931 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
33812856 CTTTAACTCC
* *
33812866 TTTTTTTTTCAAAAATAACTCTCAATTACT
1 TTTTTTTTTCAAAAACAACTCTCAATTAAT
*
33812896 TTTTTTTTTCAAAAACAACTTTCAATTAAT
1 TTTTTTTTTCAAAAACAACTCTCAATTAAT
33812926 TTTTTT
1 TTTTTT
33812932 CAAACTGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTTTTTTTCAAAAACAACTCTCAATTAAT
Found at i:33813257 original size:20 final size:20
Alignment explanation
Indices: 33813232--33813270 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33813222 CGTAAAATGA
*
33813232 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
33813252 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
33813271 AGAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33813276 original size:34 final size:34
Alignment explanation
Indices: 33813217--33813282 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
33813207 CAGTAAAATA
* *
33813217 TTTTCCGTAAAATGATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTCTAGAAAATATTTTAC
*
33813251 TTTTCTGTAAAATGATTTAC-AGAAAATATTTT
1 TTTTCCGTAAAATGATTT-CTAGAAAATATTTT
33813283 CTAGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTCTAGAAAATATTTTAC
Found at i:33820190 original size:37 final size:37
Alignment explanation
Indices: 33820146--33820222 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
33820136 AAATGTTAGT
*
33820146 ATTGTCAAAATTCTTTTATTAAATTAATTATTGTTAC
1 ATTGTCAAAATTCTTTTATTAAATTAATTATTGTGAC
*
33820183 ATTGTCAAAATTCTTTTATTAAATTTATTATTGTGAC
1 ATTGTCAAAATTCTTTTATTAAATTAATTATTGTGAC
33820220 ATT
1 ATT
33820223 TTGACATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (37 bp):
ATTGTCAAAATTCTTTTATTAAATTAATTATTGTGAC
Found at i:33820343 original size:22 final size:23
Alignment explanation
Indices: 33820306--33820348 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
33820296 TTGAATTTAT
33820306 TAAAAATAAAAGAATTAAATTTC
1 TAAAAATAAAAGAATTAAATTTC
33820329 TAAAAATAAAA-AATTAAATT
1 TAAAAATAAAAGAATTAAATT
33820349 AAAAATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAAAATAAAAGAATTAAATTTC
Found at i:33827551 original size:100 final size:98
Alignment explanation
Indices: 33827385--33827576 Score: 253
Period size: 100 Copynumber: 1.9 Consensus size: 98
33827375 AGCATCAATG
* * ** *
33827385 ACTCGTTCTGTTAAGGTGTGGTGGTAACTATGACACAAAATTAAATTTTAAAAATTAAAAATAAT
1 ACTCGTTCTGTTAAGGTGTAGTGATAACTACAACACAAAATCAAA-TTTAAAAA-TAAAAATAAT
33827450 AAAAGCAACTAAAAACAATAAAAAAAAAATCAACA
64 AAAAGCAACTAAAAACAATAAAAAAAAAATCAACA
*
33827485 ACTCGTTCTGTTAAGGTGTAGTGATACCTACAACACAAAATCAAA-TTAAAAA-AAAAATTACAA
1 ACTCGTTCTGTTAAGGTGTAGTGATAACTACAACACAAAATCAAATTTAAAAATAAAAA-T---A
*
33827548 ATAAAAGCAACTAAACACAATAAAAAAAA
62 ATAAAAGCAACTAAAAACAATAAAAAAAA
33827577 TAATTGAGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
96 5 0.06
97 1 0.01
98 7 0.09
100 68 0.84
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (98 bp):
ACTCGTTCTGTTAAGGTGTAGTGATAACTACAACACAAAATCAAATTTAAAAATAAAAATAATAA
AAGCAACTAAAAACAATAAAAAAAAAATCAACA
Found at i:33833492 original size:98 final size:98
Alignment explanation
Indices: 33833324--33833509 Score: 279
Period size: 98 Copynumber: 1.9 Consensus size: 98
33833314 GCACCTGCAT
* *
33833324 TTTTCGTGTAAAAATTTCGATTCCAGAAAAGAGAAAAAAGATACATTTTTACCCAAAAGAATAGG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTTTACCCAAAAGAATAGG
*
33833389 TTAGAGAAAGTAGTGTCAAATATATAGGTCATA
66 TTAGAGAAAGCAGTGTCAAATATATAGGTCATA
* *
33833422 TTTTC-TGTAAAAATTTCAATTCCAGAAAGAGGGGAAAAA-ACACATATTTGT-CCCAAAAGAAT
1 TTTTCGTGTAAAAATTTCAATTCCAGAAA-AGAGAAAAAAGACACAT-TTT-TACCCAAAAGAAT
33833484 AGGTTAGAGAAAGCAGTGTCAAATAT
63 AGGTTAGAGAAAGCAGTGTCAAATAT
33833510 TTAGAGGGAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
97 27 0.34
98 52 0.65
99 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (98 bp):
TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTTTACCCAAAAGAATAGG
TTAGAGAAAGCAGTGTCAAATATATAGGTCATA
Found at i:33836289 original size:6 final size:6
Alignment explanation
Indices: 33836278--33836312 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33836268 CTTTTCTCGG
* *
33836278 TCCCTA TCCCTA TCCTTA TCTCTA TCCCTA TCCCT
1 TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCT
33836313 GTGGCGATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.40
Consensus pattern (6 bp):
TCCCTA
Found at i:33836299 original size:24 final size:24
Alignment explanation
Indices: 33836265--33836312 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33836255 CACGATCACG
* *
33836265 ATCCTTTTCTCGGTCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
*
33836289 ATCCTTATCTCTATCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
33836313 GTGGCGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.42, G:0.04, T:0.42
Consensus pattern (24 bp):
ATCCTTATCTCGATCCCTATCCCT
Found at i:33838773 original size:20 final size:21
Alignment explanation
Indices: 33838748--33838787 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33838738 TAAAAACAAA
33838748 AAAATA-TA-TATCTAAAAATT
1 AAAATATTATTAT-TAAAAATT
33838768 AAAATATTATTATTAAAAAT
1 AAAATATTATTATTAAAAAT
33838788 AACTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATTATTATTAAAAATT
Found at i:33840132 original size:18 final size:17
Alignment explanation
Indices: 33840056--33840134 Score: 106
Period size: 18 Copynumber: 4.5 Consensus size: 17
33840046 TTAAAAAATA
*
33840056 ACCGAATT-ACCTGAATA
1 ACCGAATTAACC-GAATT
33840073 ACCGAATTAACCGAATT
1 ACCGAATTAACCGAATT
33840090 AACCGAATTAACCGAATT
1 -ACCGAATTAACCGAATT
33840108 ACCCGAATTAACCGAATT
1 A-CCGAATTAACCGAATT
33840126 ACTCGAATT
1 AC-CGAATT
33840135 GAATTTCCTC
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
17 14 0.25
18 43 0.75
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (17 bp):
ACCGAATTAACCGAATT
Found at i:33840134 original size:9 final size:9
Alignment explanation
Indices: 33840054--33840126 Score: 114
Period size: 9 Copynumber: 8.2 Consensus size: 9
33840044 GGTTAAAAAA
33840054 TAACCGAAT
1 TAACCGAAT
33840063 T-ACCTGAA-
1 TAACC-GAAT
33840071 TAACCGAAT
1 TAACCGAAT
33840080 TAACCGAAT
1 TAACCGAAT
33840089 TAACCGAAT
1 TAACCGAAT
33840098 TAACCGAAT
1 TAACCGAAT
*
33840107 TACCCGAAT
1 TAACCGAAT
33840116 TAACCGAAT
1 TAACCGAAT
33840125 TA
1 TA
33840127 CTCGAATTGA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
8 7 0.12
9 52 0.88
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.23
Consensus pattern (9 bp):
TAACCGAAT
Found at i:33842502 original size:18 final size:18
Alignment explanation
Indices: 33842476--33842519 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
33842466 AATTTTTATG
* *
33842476 ATTGAGTTGAGTTGGGTA
1 ATTGGGTTGAGTTGGATA
*
33842494 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGAGTTGGATA
33842512 ATTGGGTT
1 ATTGGGTT
33842520 TAGGTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGAGTTGGATA
Found at i:33845602 original size:27 final size:27
Alignment explanation
Indices: 33845572--33845661 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
33845562 TCCCTATTGC
*
33845572 GATTTTCCTAACAGACTTCCACATTCA
1 GATTGTCCTAACAGACTTCCACATTCA
* *
33845599 GATTGTCTTGACAGACTTCC-CAATTACA
1 GATTGTCCTAACAGACTTCCAC-ATT-CA
* ***
33845627 -ATCGTCCTAGTGGACTTCCACATTCA
1 GATTGTCCTAACAGACTTCCACATTCA
33845653 GATTGTCCT
1 GATTGTCCT
33845662 GATGGACCTC
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
26 3 0.06
27 43 0.88
28 3 0.06
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (27 bp):
GATTGTCCTAACAGACTTCCACATTCA
Found at i:33845615 original size:54 final size:54
Alignment explanation
Indices: 33845577--33845682 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
33845567 ATTGCGATTT
33845577 TCCTAACAGACTTCCACATTCAGATTGTCTTGACAGACTTCCCAATTACAATCG
1 TCCTAACAGACTTCCACATTCAGATTGTCTTGACAGACTTCCCAATTACAATCG
*** * ** *
33845631 TCCTAGTGGACTTCCACATTCAGATTGTCCTGATGGACCTCCCAATTACAAT
1 TCCTAACAGACTTCCACATTCAGATTGTCTTGACAGACTTCCCAATTACAAT
33845683 TATCCTTACG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (54 bp):
TCCTAACAGACTTCCACATTCAGATTGTCTTGACAGACTTCCCAATTACAATCG
Found at i:33845688 original size:27 final size:26
Alignment explanation
Indices: 33845616--33845688 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 26
33845606 TTGACAGACT
*
33845616 TCCCAATTACAATCGTCCTAGTGGAC
1 TCCCAATTACAATTGTCCTAGTGGAC
*
33845642 TTCCACATT-CAGATTGTCCT-GATGGACC
1 TCCCA-ATTACA-ATTGTCCTAG-TGGA-C
*
33845670 TCCCAATTACAATTATCCT
1 TCCCAATTACAATTGTCCT
33845689 TACGAACTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
26 7 0.18
27 24 0.63
28 7 0.18
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (26 bp):
TCCCAATTACAATTGTCCTAGTGGAC
Found at i:33845698 original size:54 final size:54
Alignment explanation
Indices: 33845586--33845699 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
33845576 TTCCTAACAG
* * * * *
33845586 ACTTCCACATTCAGATTGTCTTGACAGACTTCCCAATTACAATCGTCCTAGTGG
1 ACTTCCACATTCAGATTGTCCTGACAGACCTCCCAATTACAATCATCCTAGCGA
** *
33845640 ACTTCCACATTCAGATTGTCCTGATGGACCTCCCAATTACAATTATCCTTA-CGA
1 ACTTCCACATTCAGATTGTCCTGACAGACCTCCCAATTACAATCATCC-TAGCGA
33845694 ACTTCC
1 ACTTCC
33845700 CTCAATAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 49 0.96
55 2 0.04
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (54 bp):
ACTTCCACATTCAGATTGTCCTGACAGACCTCCCAATTACAATCATCCTAGCGA
Found at i:33857635 original size:27 final size:27
Alignment explanation
Indices: 33857605--33857670 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
33857595 AACTTTCCCT
*
33857605 CATTAGATAGTCATTACGGGT-TTCTCA
1 CATTAGATAGCCATTACGGGTCTT-TCA
33857632 CATTAGATAGCCATTACGGGTCTTTCA
1 CATTAGATAGCCATTACGGGTCTTTCA
33857659 CATTAGATAGCC
1 CATTAGATAGCC
33857671 CTTGCGAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (27 bp):
CATTAGATAGCCATTACGGGTCTTTCA
Found at i:33857686 original size:27 final size:26
Alignment explanation
Indices: 33857605--33857689 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
33857595 AACTTTCCCT
* *
33857605 CATTAGATAGTCATTACGGGTTTCTCA
1 CATTAGATAGCCATTACGAG-TTCTCA
* *
33857632 CATTAGATAGCCATTACGGGTCTTTCA
1 CATTAGATAGCCATTACGAGT-TCTCA
* *
33857659 CATTAGATAGCCCTTGCGAAGTTCTCA
1 CATTAGATAGCCATTACG-AGTTCTCA
33857686 CATT
1 CATT
33857690 TACGGTAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.94
28 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (26 bp):
CATTAGATAGCCATTACGAGTTCTCA
Found at i:33859218 original size:18 final size:17
Alignment explanation
Indices: 33859176--33859218 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
33859166 TGTTTAAGTT
*
33859176 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
33859193 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
33859211 TATAATTT
1 TATAATTT
33859219 ATAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:33859334 original size:15 final size:15
Alignment explanation
Indices: 33859303--33859363 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
33859293 GATAACTATA
*
33859303 TAAAAAATTTAATAAG
1 TAAAAAATATAA-AAG
33859319 TAAAAAATATAAAAG
1 TAAAAAATATAAAAG
** **
33859334 TATTAAATATTAAATT
1 TAAAAAATA-TAAAAG
*
33859350 TAAATAATATAAAA
1 TAAAAAATATAAAA
33859364 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
15 14 0.40
16 21 0.60
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TAAAAAATATAAAAG
Found at i:33859965 original size:27 final size:27
Alignment explanation
Indices: 33859935--33860000 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
33859925 AACTTTCCCT
*
33859935 CATTAGATAGTCATTACGGGT-TTCTCA
1 CATTAGATAGCCATTACGGGTCTT-TCA
33859962 CATTAGATAGCCATTACGGGTCTTTCA
1 CATTAGATAGCCATTACGGGTCTTTCA
33859989 CATTAGATAGCC
1 CATTAGATAGCC
33860001 CTTGCGAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (27 bp):
CATTAGATAGCCATTACGGGTCTTTCA
Found at i:33860016 original size:27 final size:26
Alignment explanation
Indices: 33859935--33860019 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
33859925 AACTTTCCCT
* *
33859935 CATTAGATAGTCATTACGGGTTTCTCA
1 CATTAGATAGCCATTACGAG-TTCTCA
* *
33859962 CATTAGATAGCCATTACGGGTCTTTCA
1 CATTAGATAGCCATTACGAGT-TCTCA
* *
33859989 CATTAGATAGCCCTTGCGAAGTTCTCA
1 CATTAGATAGCCATTACG-AGTTCTCA
33860016 CATT
1 CATT
33860020 TACGGTAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.94
28 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (26 bp):
CATTAGATAGCCATTACGAGTTCTCA
Found at i:33861548 original size:18 final size:17
Alignment explanation
Indices: 33861506--33861548 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
33861496 TGTTTAAGTT
*
33861506 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
33861523 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
33861541 TATAATTT
1 TATAATTT
33861549 ATAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:33864674 original size:27 final size:28
Alignment explanation
Indices: 33864630--33864810 Score: 234
Period size: 27 Copynumber: 6.7 Consensus size: 28
33864620 CCCCAAACTA
*
33864630 TTATAAAATGACTGTTATGCCCTC-ATG
1 TTATAAAATGACTATTATGCCCTCTATG
**
33864657 TGGTAAAATGACTATTATGCCCTC-ATG
1 TTATAAAATGACTATTATGCCCTCTATG
**
33864684 TGGTAAAATGACTATTATGCCC-CTATG
1 TTATAAAATGACTATTATGCCCTCTATG
33864711 TTATAAAATGACTATTATG-CCTCTATG
1 TTATAAAATGACTATTATGCCCTCTATG
* *
33864738 TTATAAAATGA-TGGTTATGCCCT-AATG
1 TTATAAAATGACT-ATTATGCCCTCTATG
33864765 TTATAAAATGACTATTATGCCC-CTATG
1 TTATAAAATGACTATTATGCCCTCTATG
33864792 TTATAAAATGACTA-TATGC
1 TTATAAAATGACTATTATGC
33864811 TTAATGTTAT
Statistics
Matches: 139, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.06
27 126 0.91
28 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (28 bp):
TTATAAAATGACTATTATGCCCTCTATG
Found at i:33864729 original size:81 final size:82
Alignment explanation
Indices: 33864630--33864810 Score: 262
Period size: 81 Copynumber: 2.2 Consensus size: 82
33864620 CCCCAAACTA
* * * *
33864630 TTATAAAATGACTGTTATGCCCTC-ATGTGGTAAAATGACT-ATTATGCCCTCATGTGGTAAAAT
1 TTATAAAATGACTATTATGCCCTCTATGTGATAAAATGA-TGATTATGCCCTAATGTGATAAAAT
33864693 GACTATTATGCCCCTATG
65 GACTATTATGCCCCTATG
* * *
33864711 TTATAAAATGACTATTATG-CCTCTATGTTATAAAATGATGGTTATGCCCTAATGTTATAAAATG
1 TTATAAAATGACTATTATGCCCTCTATGTGATAAAATGATGATTATGCCCTAATGTGATAAAATG
33864775 ACTATTATGCCCCTATG
66 ACTATTATGCCCCTATG
33864792 TTATAAAATGACTA-TATGC
1 TTATAAAATGACTATTATGC
33864811 TTAATGTTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
80 9 0.10
81 81 0.90
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (82 bp):
TTATAAAATGACTATTATGCCCTCTATGTGATAAAATGATGATTATGCCCTAATGTGATAAAATG
ACTATTATGCCCCTATG
Found at i:33866111 original size:12 final size:12
Alignment explanation
Indices: 33866090--33866120 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
33866080 GTATATGTAT
33866090 ATATATATATAAA
1 ATATA-ATATAAA
33866103 ATATAATATAAA
1 ATATAATATAAA
33866115 ATATAA
1 ATATAA
33866121 AAACATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:33866737 original size:41 final size:41
Alignment explanation
Indices: 33866687--33866809 Score: 99
Period size: 41 Copynumber: 3.3 Consensus size: 41
33866677 CGGGACCTAG
*
33866687 GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTT
1 GCCCAGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTT
* * * *
33866728 GCCCAGGCCCGACCTGG---GAAAAAAT---CAT--AA----
1 GCCCAGGCCCGGCCCGGCCCG-AAATATGGGCCTGGAATTTT
*
33866758 GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTT
1 GCCCAGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTT
33866799 GCCCAGGCCCG
1 GCCCAGGCCCG
33866810 ACCTGGGAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 26
0.61 0.12 0.27
Matches are distributed among these distances:
30 14 0.24
32 5 0.09
33 1 0.02
34 2 0.03
35 2 0.03
36 2 0.03
37 2 0.03
38 1 0.02
39 5 0.09
41 24 0.41
ACGTcount: A:0.20, C:0.35, G:0.32, T:0.14
Consensus pattern (41 bp):
GCCCAGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTT
Found at i:33866768 original size:71 final size:71
Alignment explanation
Indices: 33866687--33866859 Score: 346
Period size: 71 Copynumber: 2.4 Consensus size: 71
33866677 CGGGACCTAG
33866687 GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTTGCCCAGGCCCGACCTGGGAAAAAA
1 GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTTGCCCAGGCCCGACCTGGGAAAAAA
33866752 TCATAA
66 TCATAA
33866758 GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTTGCCCAGGCCCGACCTGGGAAAAAA
1 GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTTGCCCAGGCCCGACCTGGGAAAAAA
33866823 TCATAA
66 TCATAA
33866829 GCCCGGGCCCGGCCCGGCCCGAAATATGGGC
1 GCCCGGGCCCGGCCCGGCCCGAAATATGGGC
33866860 TTGGGCAAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 102 1.00
ACGTcount: A:0.22, C:0.34, G:0.31, T:0.13
Consensus pattern (71 bp):
GCCCGGGCCCGGCCCGGCCCGAAATATGGGCCTGGAATTTTGCCCAGGCCCGACCTGGGAAAAAA
TCATAA
Found at i:33868474 original size:34 final size:33
Alignment explanation
Indices: 33868427--33868497 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 33
33868417 TTTGAACTAT
*
33868427 TACTGTCATTGTAATAGGCTAAGGCCCACACTGA
1 TACTGTCACTGTAATAGGCTAAGGCCCA-ACTGA
*
33868461 TACTGTCACTGTAATGGGCTAAGGCCCAACTGA
1 TACTGTCACTGTAATAGGCTAAGGCCCAACTGA
33868494 -ACTG
1 TACTG
33868498 AACTGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 4 0.11
33 5 0.14
34 26 0.74
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
TACTGTCACTGTAATAGGCTAAGGCCCAACTGA
Found at i:33872734 original size:114 final size:112
Alignment explanation
Indices: 33872530--33872963 Score: 371
Period size: 114 Copynumber: 3.8 Consensus size: 112
33872520 CCGTAGTTTT
* * **
33872530 TTGGGATTTAGCGGCGTTTTC-GGAGAAGCGCCGCTAAAAAACCAAAAAT-CCCAACGGCGTCGT
1 TTGGGATTTAGCGGCGTTTTCGGGA-AAGCGCCGC-AAAAAA--ATATATGCCCAACGGCACCGT
* * * **
33872593 TTTCTCAGCTTTCGTGTATTTAGCGGCGCTTCCACGAAAGCGCCGCTAATGC
62 TTTCTGAGCTTTCGGGGATTTAGCGGCG-TTTTACGAAAGCGCCGCTAATGC
*
33872645 TTAGGGATTTAGCGGCGTTTTCGGGAAAGCGCCGCAAAAAAATATATGTCCAACGGCACCGTTTT
1 TT-GGGATTTAGCGGCGTTTTCGGGAAAGCGCCGCAAAAAAATATATGCCCAACGGCACCGTTTT
* *
33872710 CTGAGCTTTCGGGGACTTAGCGGCGTTTTTACCAAAGCGCCGCTAATGC
65 CTGAGCTTTCGGGGATTTAGCGGCG-TTTTACGAAAGCGCCGCTAATGC
* * * ** * * * *
33872759 TGGGGGGTTTAGCGGCATTTT-GAAAAAAGCGCGGC-AATAAATCCTAAGCCCAACGGCACCGTT
1 T-TGGGATTTAGCGGCGTTTTCG-GGAAAGCGCCGCAAAAAAAT-ATATGCCCAACGGCACCGTT
* * * * *
33872822 TTCTTAACTTTCAGGGGATTTAACGGCGTTTTAAGAAAGCGCCACTAATGC
63 TTCTGAGCTTTC-GGGGATTTAGCGGCGTTTTACGAAAGCGCCGCTAATGC
** * * * * **
33872873 TT--CCTTTAGCGGCGTTTTCGTGAAAGCACCGCAAAGAAAACTA-A-GCCGAACGACGTCGTTT
1 TTGGGATTTAGCGGCGTTTTCGGGAAAGCGCCGCAAA-AAAA-TATATGCCCAACGGCACCGTTT
* *
33872934 TCGGAGCTTTTGGGGATTTAGCGGCGTTTT
64 TCTGAGCTTTCGGGGATTTAGCGGCGTTTT
33872964 TTGGGAAGCG
Statistics
Matches: 259, Mismatches: 49, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
110 18 0.07
111 41 0.16
112 4 0.02
113 14 0.05
114 130 0.50
115 21 0.08
116 28 0.11
117 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (112 bp):
TTGGGATTTAGCGGCGTTTTCGGGAAAGCGCCGCAAAAAAATATATGCCCAACGGCACCGTTTTC
TGAGCTTTCGGGGATTTAGCGGCGTTTTACGAAAGCGCCGCTAATGC
Found at i:33873262 original size:14 final size:14
Alignment explanation
Indices: 33873237--33873274 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
33873227 AGTTTAGGGG
*
33873237 TTAGGTGTTATGTCT
1 TTAGGGGTTATG-CT
33873252 TT-GGGGTTATGCT
1 TTAGGGGTTATGCT
33873265 TTAGGGGTTA
1 TTAGGGGTTA
33873275 GGGGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.13, C:0.05, G:0.34, T:0.47
Consensus pattern (14 bp):
TTAGGGGTTATGCT
Found at i:33873635 original size:21 final size:19
Alignment explanation
Indices: 33873603--33873684 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 19
33873593 CAAAAAATAT
33873603 GGTTTAGGTTTACGGTTTAG
1 GGTTTAGGTTTA-GGTTTAG
33873623 GGTTTACGGTTTAGAGTTTAG
1 GGTTTA-GGTTTAG-GTTTAG
* *
33873644 AGTTTTAGGTTTGGGGTTTAG
1 -GGTTTAGGTTT-AGGTTTAG
* *
33873665 GATTTATGATTTAAGGTTTA
1 GGTTTA-GGTTT-AGGTTTA
33873685 TGGTATATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 12 0.24
21 33 0.65
22 6 0.12
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (19 bp):
GGTTTAGGTTTAGGTTTAG
Found at i:33873641 original size:7 final size:6
Alignment explanation
Indices: 33873603--33873684 Score: 56
Period size: 7 Copynumber: 12.0 Consensus size: 6
33873593 CAAAAAATAT
33873603 GGTTTA GGTTTA CGGTTTA GGGTTTA CGGTTTA GAGTTTA GAGTTTTA
1 GGTTTA GGTTTA -GGTTTA -GGTTTA -GGTTTA G-GTTTA G-G-TTTA
* *
33873651 GGTTTGG GGTTTA GGATTTA TGATTTAA GGTTTA
1 GGTTT-A GGTTTA GG-TTTA -GGTTT-A GGTTTA
33873685 TGGTATATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
6 13 0.21
7 43 0.68
8 7 0.11
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (6 bp):
GGTTTA
Found at i:33873648 original size:14 final size:13
Alignment explanation
Indices: 33873603--33873684 Score: 67
Period size: 14 Copynumber: 5.9 Consensus size: 13
33873593 CAAAAAATAT
33873603 GGTTTAGGTTTAC
1 GGTTTAGGTTTAC
33873616 GGTTTAGGGTTTAC
1 GGTTTA-GGTTTAC
33873630 GGTTTAGAGTTTA-
1 GGTTTAG-GTTTAC
**
33873643 GAGTTTTAGGTTTGG
1 G-G-TTTAGGTTTAC
*
33873658 GGTTTAGGATTTAT
1 GGTTTAGG-TTTAC
*
33873672 GATTTAAGGTTTA
1 GGTTT-AGGTTTA
33873685 TGGTATATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
13 14 0.24
14 35 0.60
15 9 0.16
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (13 bp):
GGTTTAGGTTTAC
Found at i:33874290 original size:73 final size:73
Alignment explanation
Indices: 33874213--33874590 Score: 330
Period size: 73 Copynumber: 5.2 Consensus size: 73
33874203 TTGTCCGTGT
*
33874213 TATTAGTGGCGTTTTTACTTTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGAGTT
1 TATTAGTGGCGTTTTTACTTTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTT
33874278 TGTACTGA
66 TGTACTGA
* * ** * * *
33874286 TATTAGTGGCGCTTATTA--TTAAGCGCCGCAAAAATGT--T-TAATGTTATCTTATAACGG-TG
1 TATTAGTGGCG-TTTTTACTTTAAGCGCCAC-AAGTTTTACTCTAATG-TGTGTTA-AACGGCTG
* *
33874345 CAGTTTTGTCCGTGT
62 C-G-TTTGTAC-TGA
*
33874360 TATTAGTGGCGTTTTTACTCTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTT
1 TATTAGTGGCGTTTTTACTTTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTT
*
33874425 TTTACTGA
66 TGTACTGA
* * * ** * * *
33874433 TATTAGTGGCGCTTATT--GTTAAGCGCCGCAAAAATGT--T-TAATGTTATCTTATAACGG-TG
1 TATTAGTGGCG-TTTTTACTTTAAGCGCCAC-AAGTTTTACTCTAATG-TGTGTTA-AACGGCTG
* *
33874492 TCGTTTTGTCCGTGT
62 -CG-TTTGTAC-TGA
* *
33874507 TATTAGTGGCGTTTTTACTCTAAGCACCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTT
1 TATTAGTGGCGTTTTTACTTTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTT
33874572 TGTACTGA
66 TGTACTGA
33874580 TATTAGTGGCG
1 TATTAGTGGCG
33874591 CTTATTGTTA
Statistics
Matches: 234, Mismatches: 45, Indels: 52
0.71 0.14 0.16
Matches are distributed among these distances:
70 10 0.04
71 16 0.07
72 32 0.14
73 65 0.28
74 54 0.23
75 30 0.13
76 17 0.07
77 10 0.04
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (73 bp):
TATTAGTGGCGTTTTTACTTTAAGCGCCACAAGTTTTACTCTAATGTGTGTTAAACGGCTGCGTT
TGTACTGA
Found at i:33874458 original size:147 final size:146
Alignment explanation
Indices: 33874191--33874611 Score: 761
Period size: 147 Copynumber: 2.9 Consensus size: 146
33874181 GAGTTGAGGA
*
33874191 AACGGTGCCGTTTTGTCCGTGTTATTAGTGGCGTTTTTACTTTAAGCGCCACAAGTTTTACTCTA
1 AACGGTG-CGTTTTGTCCGTGTTATTAGTGGCGTTTTTACTCTAAGCGCCACAAGTTTTACTCTA
* *
33874256 ATGTGTGTTAAACGGCTGAGTTTGTACTGATATTAGTGGCGCTTATTATTAAGCGCCGCAAAAAT
65 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGCGCTTATTGTTAAGCGCCGCAAAAAT
33874321 GTTTAATGTTATCTTAT
130 GTTTAATGTTATCTTAT
33874338 AACGGTGCAGTTTTGTCCGTGTTATTAGTGGCGTTTTTACTCTAAGCGCCACAAGTTTTACTCTA
1 AACGGTGC-GTTTTGTCCGTGTTATTAGTGGCGTTTTTACTCTAAGCGCCACAAGTTTTACTCTA
*
33874403 ATGTGTGTTAAACGGCTGCGTTTTTACTGATATTAGTGGCGCTTATTGTTAAGCGCCGCAAAAAT
65 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGCGCTTATTGTTAAGCGCCGCAAAAAT
33874468 GTTTAATGTTATCTTAT
130 GTTTAATGTTATCTTAT
*
33874485 AACGGTGTCGTTTTGTCCGTGTTATTAGTGGCGTTTTTACTCTAAGCACCACAAGTTTTACTCTA
1 AACGGTG-CGTTTTGTCCGTGTTATTAGTGGCGTTTTTACTCTAAGCGCCACAAGTTTTACTCTA
*
33874550 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGCGCTTATTGTTAAGCGTCGCAAA
65 ATGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGCGCTTATTGTTAAGCGCCGCAAA
33874612 TTATTTCATT
Statistics
Matches: 265, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
146 1 0.00
147 263 0.99
148 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (146 bp):
AACGGTGCGTTTTGTCCGTGTTATTAGTGGCGTTTTTACTCTAAGCGCCACAAGTTTTACTCTAA
TGTGTGTTAAACGGCTGCGTTTGTACTGATATTAGTGGCGCTTATTGTTAAGCGCCGCAAAAATG
TTTAATGTTATCTTAT
Found at i:33874939 original size:173 final size:169
Alignment explanation
Indices: 33874649--33874988 Score: 511
Period size: 173 Copynumber: 2.0 Consensus size: 169
33874639 TCGCTTTTTT
*
33874649 CCCATACATTTTACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
1 CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
* * *
33874714 AAATCCCTAAATTTCCCCTAATCCAGATTTCCCCAAAGCCGACCTTTTGCAACGTTGCCATTTCC
66 AAATCCCTAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCATTTCC
*
33874779 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTAC
131 TCTAGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTAC
*
33874818 CCCATACATTTAACCGAAACTTAAACCCCAACTATTGTGACTTATCCCCCAAAAT-CCATTTCTC
1 CCCATACATTTAACCGAAACTTAAA-CCC--CTATCGTGACTTATCCCCCAAAATCCCA-TTCTC
* * * * **
33874882 TCCGAAATTCTTAAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCTG
62 CCCCAAATCCCT-AAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCA
*
33874947 TTTCCTCTAGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCT
126 TTTCCTCTAGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCT
33874989 GCCGCAACAA
Statistics
Matches: 153, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
169 24 0.16
170 3 0.02
171 3 0.02
172 36 0.24
173 87 0.57
ACGTcount: A:0.23, C:0.39, G:0.09, T:0.29
Consensus pattern (169 bp):
CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
AAATCCCTAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCATTTCC
TCTAGCGCATCACCGTCTCCCTCCGTCGGTCCCCTCTAC
Found at i:33876659 original size:9 final size:9
Alignment explanation
Indices: 33876645--33877121 Score: 199
Period size: 9 Copynumber: 54.8 Consensus size: 9
33876635 TTTAATTTAA
*
33876645 TACATAATT
1 TACATAACT
33876654 TACATAACT
1 TACATAACT
*
33876663 CACATAACT
1 TACATAACT
* *
33876672 TACAAAAGT
1 TACATAACT
* *
33876681 CACAT-ACA
1 TACATAACT
33876689 TACATAACT
1 TACATAACT
*
33876698 TA-ATAAAT
1 TACATAACT
*
33876706 GGTACATAGCT
1 --TACATAACT
*
33876717 TATATAACT
1 TACATAACT
33876726 TACATAA--
1 TACATAACT
33876733 TACATAACT
1 TACATAACT
* *
33876742 TAAATAA-A
1 TACATAACT
33876750 TACATAACT
1 TACATAACT
*
33876759 TATATAA--
1 TACATAACT
33876766 TACATAA--
1 TACATAACT
33876773 TACATAACT
1 TACATAACT
33876782 TACATAATAACT
1 TAC---ATAACT
*
33876794 TGCATAATATCT
1 TACAT-A-A-CT
33876806 TACATAATAACT
1 TAC---ATAACT
33876818 TACATAA-T
1 TACATAACT
* *
33876826 AATACATACCC
1 --TACATAACT
*
33876837 TACATAAAT
1 TACATAACT
* *
33876846 TAAATAAGT
1 TACATAACT
33876855 TACATAA--
1 TACATAACT
* *
33876862 TACACAA-A
1 TACATAACT
* *
33876870 AACAAAAACT
1 TAC-ATAACT
*
33876880 TACATAACC
1 TACATAACT
*
33876889 TACATTA--
1 TACATAACT
33876896 TACATAACT
1 TACATAACT
33876905 TACATAAGC-
1 TACATAA-CT
*
33876914 TACTTAA--
1 TACATAACT
*
33876921 TGCATAACT
1 TACATAACT
*
33876930 TGCATAACT
1 TACATAACT
*
33876939 TACTTAA--
1 TACATAACT
33876946 TACATAACT
1 TACATAACT
*
33876955 TGCATAACT
1 TACATAACT
33876964 TACATAA--
1 TACATAACT
*
33876971 TACACAACT
1 TACATAACT
*
33876980 TACAT--GT
1 TACATAACT
*
33876987 GTAAATAA--
1 -TACATAACT
*
33876995 TACACAACT
1 TACATAACT
33877004 TACATAACT
1 TACATAACT
33877013 TACATAA--
1 TACATAACT
33877020 TACATAACT
1 TACATAACT
*
33877029 TACATAACC
1 TACATAACT
*
33877038 TACTTAA--
1 TACATAACT
33877045 TACATAACT
1 TACATAACT
*
33877054 TGCATAACT
1 TACATAACT
33877063 TACATAA--
1 TACATAACT
*
33877070 TACACAACT
1 TACATAACT
33877079 TACATAACT
1 TACATAACT
* * *
33877088 TATATACCC
1 TACATAACT
*
33877097 TACATAAAT
1 TACATAACT
* *
33877106 TAAATAAGT
1 TACATAACT
33877115 TACATAA
1 TACATAA
33877122 TAATACATAC
Statistics
Matches: 350, Mismatches: 74, Indels: 88
0.68 0.14 0.17
Matches are distributed among these distances:
7 74 0.21
8 23 0.07
9 215 0.61
10 12 0.03
11 5 0.01
12 17 0.05
13 1 0.00
14 1 0.00
15 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:33876694 original size:44 final size:40
Alignment explanation
Indices: 33876642--33876788 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 40
33876632 TATTTTAATT
* * * *
33876642 TAATACATAATTTACATAACTCACATAACTTACAAAAGTCACA
1 TAATACATAACTTACATAAAT-ACATAACTTATATAA-T-ACA
*
33876685 TACATACATAACTTA-ATAAATGGTACATAGCTTATATAACTTACA
1 TA-ATACATAACTTACATAAA---TACATAACTTATATAA--TACA
*
33876730 TAATACATAACTTAAATAAATACATAACTTATATAATACA
1 TAATACATAACTTACATAAATACATAACTTATATAATACA
33876770 TAATACATAACTTACATAA
1 TAATACATAACTTACATAA
33876789 TAACTTGCAT
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
40 22 0.24
42 15 0.17
43 6 0.07
44 23 0.26
45 22 0.24
46 2 0.02
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (40 bp):
TAATACATAACTTACATAAATACATAACTTATATAATACA
Found at i:33876741 original size:16 final size:16
Alignment explanation
Indices: 33876720--33877085 Score: 124
Period size: 16 Copynumber: 22.8 Consensus size: 16
33876710 CATAGCTTAT
33876720 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
33876736 ATAACTTAAATAAATAC
1 ATAACTTACAT-AATAC
*
33876753 ATAACTTATATAATAC
1 ATAACTTACATAATAC
33876769 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
* * *
33876785 ATAA-TAACTTGCATA-
1 ATAACTTACAT-AATAC
*
33876800 ATATCTTACATAATA-
1 ATAACTTACATAATAC
* *
33876815 ACTTACATA-ATAATAC
1 A-TAACTTACATAATAC
* * *
33876831 ATACCCTACATAAATTAA
1 ATAACTTACAT-AA-TAC
*
33876849 ATAAGTTACATAATAC
1 ATAACTTACATAATAC
* ** *
33876865 ACAA-AAACAAAAACTTAC
1 ATAACTTAC-ATAA--TAC
* *
33876883 ATAACCTACATTATAC
1 ATAACTTACATAATAC
*
33876899 ATAACTTACATAA-GC
1 ATAACTTACATAATAC
*
33876914 -T-AC-T---TAATGC
1 ATAACTTACATAATAC
*
33876924 ATAACTTGCATAACTTAC
1 ATAACTTACATAA--TAC
* *
33876942 TTAA--TACATAACTTGC
1 ATAACTTACATAA--TAC
33876958 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* ** *
33876974 ACAACTTACATGTGTAA
1 ATAACTTACAT-AATAC
*
33876991 ATAA--TACACAACTTAC
1 ATAACTTACATAA--TAC
33877007 ATAACTTACATAATAC
1 ATAACTTACATAATAC
33877023 ATAACTTACATAACCTAC
1 ATAACTTACATAA--TAC
* *
33877041 TTAA--TACATAACTTGC
1 ATAACTTACATAA--TAC
33877057 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
33877073 ACAACTTACATAA
1 ATAACTTACATAA
33877086 CTTATATACC
Statistics
Matches: 260, Mismatches: 55, Indels: 70
0.68 0.14 0.18
Matches are distributed among these distances:
9 3 0.01
10 2 0.01
11 1 0.00
12 3 0.01
13 3 0.01
14 7 0.03
15 24 0.09
16 138 0.53
17 27 0.10
18 50 0.19
19 2 0.01
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:33876743 original size:25 final size:24
Alignment explanation
Indices: 33876708--33876756 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
33876698 TAATAAATGG
* * *
33876708 TACATAGCTTATATAACTTACATAA
1 TACATAACTTAAATAA-ATACATAA
33876733 TACATAACTTAAATAAATACATAA
1 TACATAACTTAAATAAATACATAA
33876757 CTTATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (24 bp):
TACATAACTTAAATAAATACATAA
Found at i:33876793 original size:12 final size:12
Alignment explanation
Indices: 33876753--33876827 Score: 91
Period size: 12 Copynumber: 6.3 Consensus size: 12
33876743 AAATAAATAC
*
33876753 ATAACTTATATA
1 ATAACTTACATA
*
33876765 AT-ACATA-ATA
1 ATAACTTACATA
33876775 CATAACTTACATA
1 -ATAACTTACATA
*
33876788 ATAACTTGCATA
1 ATAACTTACATA
*
33876800 ATATCTTACATA
1 ATAACTTACATA
33876812 ATAACTTACATA
1 ATAACTTACATA
33876824 ATAA
1 ATAA
33876828 TACATACCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.06
11 6 0.11
12 42 0.78
13 3 0.06
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:33876904 original size:25 final size:25
Alignment explanation
Indices: 33876876--33877123 Score: 259
Period size: 25 Copynumber: 9.9 Consensus size: 25
33876866 CAAAAACAAA
* *
33876876 AACTTACATAACCTACATTATACAT
1 AACTTACATAACTTACATAATACAT
* *
33876901 AACTTACATAAGC-TACTTAATGCAT
1 AACTTACATAA-CTTACATAATACAT
* *
33876926 AACTTGCATAACTTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
* *
33876951 AACTTGCATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAT
* * *
33876976 AACTTACAT--GTGTAAATAATACAC
1 AACTTACATAACT-TACATAATACAT
33877000 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
33877025 AACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
* *
33877050 AACTTGCATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAT
* *
33877075 AACTTACATAACTTATATACCCTACAT
1 AACTTACATAACTTACATA--ATACAT
* * *
33877102 AAATTAAATAAGTTACATAATA
1 AACTTACATAACTTACATAATA
33877124 ATACATACCT
Statistics
Matches: 188, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.01
24 21 0.11
25 145 0.77
26 2 0.01
27 19 0.10
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:33877004 original size:99 final size:99
Alignment explanation
Indices: 33876895--33877083 Score: 317
Period size: 99 Copynumber: 1.9 Consensus size: 99
33876885 AACCTACATT
* * * * *
33876895 ATACATAACTTACATAAGC-TACTTAATGCATAACTTGCATAACTTACTTAATACATAACTTGCA
1 ATACACAACTTACATAA-CTTACATAATACATAACTTACATAACCTACTTAATACATAACTTGCA
33876959 TAACTTACATAATACACAACTTACATGTGTAAATA
65 TAACTTACATAATACACAACTTACATGTGTAAATA
33876994 ATACACAACTTACATAACTTACATAATACATAACTTACATAACCTACTTAATACATAACTTGCAT
1 ATACACAACTTACATAACTTACATAATACATAACTTACATAACCTACTTAATACATAACTTGCAT
33877059 AACTTACATAATACACAACTTACAT
66 AACTTACATAATACACAACTTACAT
33877084 AACTTATATA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
98 1 0.01
99 83 0.99
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (99 bp):
ATACACAACTTACATAACTTACATAATACATAACTTACATAACCTACTTAATACATAACTTGCAT
AACTTACATAATACACAACTTACATGTGTAAATA
Found at i:33881693 original size:21 final size:21
Alignment explanation
Indices: 33881667--33881723 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
33881657 NNNNNNNNNN
* *
33881667 CAGCGAGGGAAGCAGAGGCTA
1 CAGCGAGAGAAGCAGAGGCCA
*
33881688 CAGCGAGAGAAGCAGAGGCCG
1 CAGCGAGAGAAGCAGAGGCCA
33881709 CAGCGAGAGAAGCAG
1 CAGCGAGAGAAGCAG
33881724 CGAGAGAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.42, T:0.02
Consensus pattern (21 bp):
CAGCGAGAGAAGCAGAGGCCA
Found at i:33881725 original size:12 final size:12
Alignment explanation
Indices: 33881688--33881735 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
33881678 GCAGAGGCTA
33881688 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
33881700 CA--GAG-GCCG
1 CAGCGAGAGAAG
33881709 CAGCGAGAGAAG
1 CAGCGAGAGAAG
33881721 CAGCGAGAGAAG
1 CAGCGAGAGAAG
33881733 CAG
1 CAG
33881736 AGGTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 4 0.14
10 3 0.10
11 3 0.10
12 19 0.66
ACGTcount: A:0.38, C:0.21, G:0.42, T:0.00
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:33882289 original size:42 final size:42
Alignment explanation
Indices: 33882187--33882437 Score: 288
Period size: 42 Copynumber: 5.9 Consensus size: 42
33882177 TTTGTGAAAT
* * * ** **
33882187 AAGCGCCACTAAAGAACACTACTTTTAGCGGCATTTGTAGATG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT-TTTACC
* * *
33882230 AAGCGCTGCTAAAGAACATTACTTTTATCGGCGTTTTCTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* *
33882272 AAGCGCTGCTATAGAACATTACTTTTAGCGGCGTTTTTTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* *
33882314 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* * *
33882356 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCAGCGTTTTTTCCC
1 -AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTACC
* * *
33882399 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTT
33882438 TTTGTAAGCG
Statistics
Matches: 184, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
42 117 0.64
43 67 0.36
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
Found at i:33882384 original size:85 final size:85
Alignment explanation
Indices: 33882186--33882456 Score: 278
Period size: 85 Copynumber: 3.2 Consensus size: 85
33882176 GTTTGTGAAA
* * * ** ** *
33882186 TAAGCGCCACTAAAGAACACT-ACTTTTAGCGGCATTTGTAGATGAAGCGCTGCTAAAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGACTTTTAGCAGCGTTT-TTTACCAAGCGCCGCTAAAGAACATT
* * *
33882250 ACTTTTATCGGCGTTTTCTACC
64 ACTTTTAGCGGCGTTTTTTTCC
* * * * *
33882272 -AAGCGCTGCTATAGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTAC
1 TAAGCGCCGCTAAAGAACATGACTTTTAGCAGCGTTTTTTACCAAGCGCCGCTAAAGAACATTAC
33882336 TTTTAGCGGCGTTTTTTTCC
66 TTTTAGCGGCGTTTTTTTCC
* *
33882356 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCAGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGACT-TTTAGCAGCGTTTTTTACCAAGCGCCGCTAAAGAACATTA
* * **
33882420 CCTTTAGCGGCATTTTTTTTTG
65 CTTTTAGCGGC-GTTTTTTTCC
*
33882442 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
33882457 TTAGCGACGT
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
84 41 0.26
85 94 0.60
86 21 0.13
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGACTTTTAGCAGCGTTTTTTACCAAGCGCCGCTAAAGAACATTAC
TTTTAGCGGCGTTTTTTTCC
Found at i:33893715 original size:19 final size:19
Alignment explanation
Indices: 33893684--33893721 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
33893674 TCAATTACAC
*
33893684 CCAATTCAGTG-TTACCCA
1 CCAATTCAATGTTTACCCA
33893702 CCAATTACAATGTTTACCCA
1 CCAATT-CAATGTTTACCCA
33893722 AACATGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.29
Consensus pattern (19 bp):
CCAATTCAATGTTTACCCA
Found at i:33895710 original size:44 final size:43
Alignment explanation
Indices: 33895636--33895769 Score: 137
Period size: 42 Copynumber: 3.1 Consensus size: 43
33895626 ATAGGATTCT
* * * * *
33895636 GATATGTGATCTCGTGTAAGATCACGTCTGGGACGTTGGCATC
1 GATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
* * * *
33895679 GATTTGAT-ATTTACGTGTAAGACCATATCTGGGACATTGGTATT
1 GATAT-ATGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATC
* *
33895723 G-TATATGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATC
1 GATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
33895765 GATAT
1 GATAT
33895770 TTAATTACAT
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.40
43 16 0.22
44 27 0.38
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
GATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:33896430 original size:78 final size:77
Alignment explanation
Indices: 33896297--33896445 Score: 262
Period size: 78 Copynumber: 1.9 Consensus size: 77
33896287 CTTAATTTTA
33896297 ATATTAATGTAATGCATATTCGGTCATGGCAATAGCTTATTATAGAAGTGGATTTCATGGTATAT
1 ATATTAATGTAATGCATATTCGGTCATGGCAATAGCTTATTATAGAAGTGGATTTCATGGTATAT
*
33896362 TTATATATATAT
66 ATATATATATAT
* *
33896374 ATATATAATGTTATGCATATTCGGTCATGGCAATAGTTTATTATAGAAGTGGATTTCATGGTATA
1 ATAT-TAATGTAATGCATATTCGGTCATGGCAATAGCTTATTATAGAAGTGGATTTCATGGTATA
33896439 TATATAT
65 TATATAT
33896446 GGTGTTTGGT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
77 4 0.06
78 64 0.94
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (77 bp):
ATATTAATGTAATGCATATTCGGTCATGGCAATAGCTTATTATAGAAGTGGATTTCATGGTATAT
ATATATATATAT
Found at i:33907397 original size:131 final size:131
Alignment explanation
Indices: 33907163--33907519 Score: 624
Period size: 131 Copynumber: 2.7 Consensus size: 131
33907153 CCTTAATTTA
* * * ** * * *
33907163 ACTTAAAATTTTGTTTTTTTATTCAATCAAATAGCTGGACTTTACCTCCAGGTTGAGTTTGGAAC
1 ACTTAAAGTTTTGTGTTTTTATTCAATCAAATACCTAAAGTTTACTTCAAGGTTGAGTTTGGAAC
* *
33907228 TCAACTTTTCTAAAAACCTTAAATGGCTTAAAGTAGCCATGTGTAGGAAAATTTATTGCCGTTGT
66 TTAATTTTTCTAAAAACCTTAAATGGCTTAAAGTAGCCATGTGTAGGAAAATTTATTGCCGTTGT
33907293 T
131 T
33907294 ACTTAAAGTTTTGTGTTTTTATTCAATCAAATACCTAAAGTTTACTTCAAGGTTGAGTTTGGAAC
1 ACTTAAAGTTTTGTGTTTTTATTCAATCAAATACCTAAAGTTTACTTCAAGGTTGAGTTTGGAAC
33907359 TTAATTTTTCTAAAAACCTTAAATGGCTTAAAGTAGCCATGTGTAGGAAAATTTATTGCCGTTGT
66 TTAATTTTTCTAAAAACCTTAAATGGCTTAAAGTAGCCATGTGTAGGAAAATTTATTGCCGTTGT
33907424 T
131 T
33907425 ACTTAAAGTTTTGTGTTTTTATTCAATCAAATACCTAAAGTTTACTTCAAGGTTGAGTTTGGAAC
1 ACTTAAAGTTTTGTGTTTTTATTCAATCAAATACCTAAAGTTTACTTCAAGGTTGAGTTTGGAAC
33907490 TTAATTTTTCTAAAAACCTTAAATGGCTTA
66 TTAATTTTTCTAAAAACCTTAAATGGCTTA
33907520 GCACCTCTCT
Statistics
Matches: 216, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 216 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (131 bp):
ACTTAAAGTTTTGTGTTTTTATTCAATCAAATACCTAAAGTTTACTTCAAGGTTGAGTTTGGAAC
TTAATTTTTCTAAAAACCTTAAATGGCTTAAAGTAGCCATGTGTAGGAAAATTTATTGCCGTTGT
T
Done.