Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 161 of 333
Found at i:52945380 original size:22 final size:23
Alignment explanation
Indices: 52945350--52945395 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
52945340 AGATGTAGTG
*
52945350 AATAGAAAACAAAAGTTA-GCTT
1 AATAGAAAACAAAAATTATGCTT
* *
52945372 AATATAAAATAAAAATTATGCTT
1 AATAGAAAACAAAAATTATGCTT
52945395 A
1 A
52945396 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (23 bp):
AATAGAAAACAAAAATTATGCTT
Found at i:52946324 original size:13 final size:13
Alignment explanation
Indices: 52946306--52946331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52946296 GGACACGACC
52946306 GTATGTAAAGAAT
1 GTATGTAAAGAAT
52946319 GTATGTAAAGAAT
1 GTATGTAAAGAAT
52946332 TTGTTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GTATGTAAAGAAT
Found at i:52951089 original size:7 final size:7
Alignment explanation
Indices: 52951054--52951117 Score: 74
Period size: 7 Copynumber: 8.9 Consensus size: 7
52951044 AAGTATGAAA
52951054 CTAAACC
1 CTAAACC
52951061 CTAAAACC
1 CT-AAACC
*
52951069 CTAAATC
1 CTAAACC
* *
52951076 TTAAAACA
1 CT-AAACC
*
52951084 CTAAACA
1 CTAAACC
52951091 CTAAACC
1 CTAAACC
52951098 CTAAACC
1 CTAAACC
52951105 CTAAACC
1 CTAAACC
52951112 CTAAAC
1 CTAAAC
52951118 TTGTAAGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
7 38 0.78
8 11 0.22
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:52951095 original size:15 final size:15
Alignment explanation
Indices: 52951053--52951109 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
52951043 GAAGTATGAA
52951053 ACTAAACCCTAAAAC
1 ACTAAACCCTAAAAC
* * *
52951068 CCTAAATCTTAAAAC
1 ACTAAACCCTAAAAC
*
52951083 ACTAAACACT-AAAC
1 ACTAAACCCTAAAAC
*
52951097 CCTAAACCCTAAA
1 ACTAAACCCTAAA
52951110 CCCTAAACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.18
Consensus pattern (15 bp):
ACTAAACCCTAAAAC
Found at i:52961512 original size:168 final size:169
Alignment explanation
Indices: 52961217--52961554 Score: 554
Period size: 168 Copynumber: 2.0 Consensus size: 169
52961207 TAGCCATTGG
52961217 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
1 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
* * * *
52961282 GTTATGTTATGAATTTGTTATCAAAGGTTGCTATTGCCTAATTTAATCCAAGGTAGGTTTATAA-
66 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
**
52961346 CCAGTTATGCATGTAATAGTATGCCT-TGTTAAAGGATGA
131 CCACCTATGCATGTAATAGTATGCCTCT-TTAAAGGATGA
* * *
52961385 AATGGCTAGTATTGGTTCATTTTGGTATTACTAAGTAGATTATTATGATATACATATACACATGT
1 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
52961450 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
66 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
* *
52961515 CCACCTATGCATGTAATGGTATGCCTCTTTAAATGATGA
131 CCACCTATGCATGTAATAGTATGCCTCTTTAAAGGATGA
52961554 A
1 A
52961555 TTTGCCTATT
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
168 122 0.78
169 34 0.22
170 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (169 bp):
AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
CCACCTATGCATGTAATAGTATGCCTCTTTAAAGGATGA
Found at i:52968112 original size:29 final size:27
Alignment explanation
Indices: 52968079--52968163 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 27
52968069 TGTGAGTTAT
52968079 ACTGATTTGACTTCACGCCATGCATATCG
1 ACTGATTTG-CTTCA-GCCATGCATATCG
*
52968108 ACTGATTTTGCTTCGGGCCATGCATATCG
1 ACTGA-TTTGCTTC-AGCCATGCATATCG
*
52968137 ACTAATTTGGCTTCGAGCCATG-ATATC
1 ACTGATTT-GCTTC-AGCCATGCATATC
52968164 AGTACTTCGA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.16
29 38 0.76
30 4 0.08
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
ACTGATTTGCTTCAGCCATGCATATCG
Found at i:52968163 original size:28 final size:29
Alignment explanation
Indices: 52968095--52968163 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
52968085 TTGACTTCAC
* * *
52968095 GCCATGCATATCGACTGATTTTGCTTCGG
1 GCCATGCATATCGACTAATTTGGCTTCGA
52968124 GCCATGCATATCGACTAATTTGGCTTCGA
1 GCCATGCATATCGACTAATTTGGCTTCGA
52968153 GCCATG-ATATC
1 GCCATGCATATC
52968164 AGTACTTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (29 bp):
GCCATGCATATCGACTAATTTGGCTTCGA
Found at i:52971377 original size:24 final size:24
Alignment explanation
Indices: 52971345--52971393 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52971335 CCAATATTCC
52971345 AACATGCTTATAACTTCAAATCTT
1 AACATGCTTATAACTTCAAATCTT
52971369 AACATGCTTATAACTTCAAATCTT
1 AACATGCTTATAACTTCAAATCTT
52971393 A
1 A
52971394 CTCTACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (24 bp):
AACATGCTTATAACTTCAAATCTT
Found at i:52972148 original size:40 final size:39
Alignment explanation
Indices: 52972079--52972217 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 39
52972069 GCTTGATATC
* * * *
52972079 TCGCACACTAAGTGTCGTACATAGCCGAAGCAATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGC-ATATCAAA
* *
52972119 TCGCAAACTAAGTGCCATATATAGTCGAAGC-TATC---
1 TCGCACACTAAGTGCCATATATAGCCGAAGCATATCAAA
* *
52972154 TCG-ATACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGC-ATATCAAA
*
52972193 TCGCACATTAAGTGCCATATATAGC
1 TCGCACACTAAGTGCCATATATAGC
52972218 TGATTTGTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
34 25 0.30
35 3 0.04
36 3 0.04
38 3 0.04
39 3 0.04
40 45 0.55
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCATATCAAA
Found at i:52972206 original size:74 final size:75
Alignment explanation
Indices: 52972075--52972216 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 75
52972065 GAATGCTTGA
* *
52972075 TATCTCGCACACTAAGTGTCGTACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
1 TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
52972140 TAGTCGAAGC
66 TAGTCGAAGC
* * * * * *
52972150 TATCTCG-ATACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCGCACATTAAGTGCCATATA
1 TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
52972214 TAG
66 TAG
52972217 CTGATTTGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 52 0.88
75 7 0.12
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (75 bp):
TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
TAGTCGAAGC
Found at i:52976756 original size:29 final size:29
Alignment explanation
Indices: 52976724--52976810 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
52976714 AATCTCTTTC
*
52976724 ATATGGCCCATGAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
* * *
52976753 ATATGGCCTATTAGGCCCAAATCATATTC
1 ATATGGCCCATTAGGCCCAAATCACATTT
* *
52976782 ATATGG-CCATTAGGACCAAAACACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
52976810 A
1 A
52976811 CAGTCATGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 18 0.37
29 31 0.63
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:52979298 original size:40 final size:40
Alignment explanation
Indices: 52979243--52979467 Score: 378
Period size: 40 Copynumber: 5.6 Consensus size: 40
52979233 TGGATGATAA
* * *
52979243 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
*
52979283 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
52979323 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
52979363 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
* * *
52979403 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
*
52979443 CTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52979468 AGCAAGTAGT
Statistics
Matches: 175, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
Found at i:52979766 original size:22 final size:21
Alignment explanation
Indices: 52979725--52979768 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
52979715 GAATGTGCAT
52979725 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
52979747 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
52979769 CAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:52983370 original size:50 final size:50
Alignment explanation
Indices: 52983155--52983384 Score: 225
Period size: 50 Copynumber: 4.6 Consensus size: 50
52983145 CTGATACGCA
* * * * **
52983155 TAGTAGCCTGCACTTAGTACTACTCATGTGAC-CAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
* * *
52983204 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACAGTATGGTACACG
* * * * *
52983254 TAATAGCTTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGT-A-TG-GTACACG
* * * * *
52983305 TAGTAGCCTGTACTTAGTACTACACATGCGACTTAACAGTATGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
52983355 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
52983385 TATTCACAAT
Statistics
Matches: 145, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 29 0.20
50 71 0.49
51 35 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
Found at i:52990696 original size:26 final size:26
Alignment explanation
Indices: 52990667--52990747 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 26
52990657 AACAATTCGG
52990667 TACACGTAGTAACCTGCACTTAGTAC
1 TACACGTAGTAACCTGCACTTAGTAC
*
52990693 TACAC--ACGTGACCT-CACCATCT-G-A-
1 TACACGTA-GTAACCTGCA-C-T-TAGTAC
*
52990717 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAACCTGCACTTAGTAC
52990743 TACAC
1 TACAC
52990748 ACGTGATCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 15 0.36
26 15 0.36
27 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.25
Consensus pattern (26 bp):
TACACGTAGTAACCTGCACTTAGTAC
Found at i:52990733 original size:50 final size:48
Alignment explanation
Indices: 52990667--52990853 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 48
52990657 AACAATTCGG
* * *
52990667 TACACGTAGTAACCTGCACTTAGTACTACACACGTGACCTCACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACAT-TGA
* *
52990717 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-ACATTGA
* * * * * * *
52990767 GTACACATAGTAGCCTACACTTAGTACTACACATGCGACTTAATAGTATGG
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACA-T-TGA
52990818 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
52990854 TATTCACAAT
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 76 0.66
51 38 0.33
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACATTGA
Found at i:53007883 original size:40 final size:40
Alignment explanation
Indices: 53007815--53007990 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
53007805 ACCCAAGTAT
*
53007815 CTTCGGGAT-TTAG-CC-GATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
53007853 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
53007893 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
53007933 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
53007973 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
53007991 TTATCATCCG
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.09
39 4 0.03
40 101 0.85
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:53026974 original size:18 final size:19
Alignment explanation
Indices: 53026940--53026983 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
53026930 GATACTAATT
53026940 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
53026959 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
53026977 AGTATAT
1 A-TATAT
53026984 TCGGCAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:53028076 original size:28 final size:28
Alignment explanation
Indices: 53028036--53028123 Score: 149
Period size: 28 Copynumber: 3.1 Consensus size: 28
53028026 TGGGAAGTAG
* *
53028036 TTGGGCCTGATGGGCCATATGAATTTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
53028064 TTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
*
53028092 TTGGGCTTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
53028120 TTGG
1 TTGG
53028124 TAACTAGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.18, C:0.12, G:0.38, T:0.32
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATGTGAATGTGA
Found at i:53028139 original size:14 final size:14
Alignment explanation
Indices: 53028120--53028170 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
53028110 GTGAATGTGA
53028120 TTGGTAACTAGTTT
1 TTGGTAACTAGTTT
* * *
53028134 TTGGTAAATGGGTT
1 TTGGTAACTAGTTT
* *
53028148 GTGG-ACCTAGTTT
1 TTGGTAACTAGTTT
53028161 TTGGTAACTA
1 TTGGTAACTA
53028171 CTTAAGCAGA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (14 bp):
TTGGTAACTAGTTT
Found at i:53028445 original size:27 final size:27
Alignment explanation
Indices: 53028421--53028920 Score: 510
Period size: 27 Copynumber: 18.4 Consensus size: 27
53028411 AGACATTATT
* * *
53028421 GAAACACCCTCAATTTGAAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
53028448 GAAATA-CCTCCGATTTGTAAAATTACC
1 GAAATACCCT-CGATTTGTAAAATTACC
** * * *
53028475 GAAATA-CCTTTAATTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
53028501 GAAATATCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
53028528 GAAATACCCTTGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
53028555 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
53028581 GAAAAACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
53028608 GAAATACCGTCGA-TTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
53028634 AAAATACCTTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
53028661 AAAATACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
53028688 GAAACACCCCCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
53028715 TAAATATCCC-CGATTTGTAAAATTATC
1 GAAATA-CCCTCGATTTGTAAAATTACC
* *
53028742 GAAATACCGAAATACCTCAATTTGTAAAATTACT
1 GAAATA-C------CCTCGATTTGTAAAATTACC
* *
53028776 GAAATAACCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
53028803 GAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
53028830 AAAATACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
53028857 AAAACACCC-CTGATTTGTAAAATTATC
1 GAAATACCCTC-GATTTGTAAAATTACC
* *
53028884 GAAATACCCT-TATAGTGTAAAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
53028911 GAAATACCCT
1 GAAATACCCT
53028921 TACAGTGTAA
Statistics
Matches: 400, Mismatches: 58, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
26 70 0.17
27 305 0.76
28 3 0.01
33 2 0.00
34 20 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:53028553 original size:80 final size:80
Alignment explanation
Indices: 53028415--53028946 Score: 473
Period size: 80 Copynumber: 6.5 Consensus size: 80
53028405 ATAAAGAGAC
* * *
53028415 ATTATTGAAACACCCTCAATTTGAAAAATTACCGAAATA-CCTCCGATTTGTAAAATTACCGAAA
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCT-CGATTTGTAAAATTACCGAAA
*
53028479 TACCTTTAATTGTGAA
65 TACCTTTAATTGTAAA
* *
53028495 ATTACTGAAATATCCTCAATTTGTAAAATTACCGAAATACCCTTGATTTGTAAAATTACCGAAAT
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAAT
* ** *
53028560 ACCCTCGATTGTGAA
66 ACCTTTAATTGTAAA
* * * * *
53028575 ATTACTGAAAAACCCTCGATTTGTAAAATTACCGAAATACCGTCGA-TTGTGAAATTACCAAAAT
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAAT
* *
53028639 ACCTTCGATTTGTAAA
66 ACCTT-TAATTGTAAA
* * * * * **
53028655 ATTA-TCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCCGATTTGTAAAATTACTTAAA
1 ATTACT-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAA
*** *
53028719 TATCCCCGATTTGTAAA
65 TA-CCTTTAATTGTAAA
* *
53028736 ATTA-TCGAAATACCGAAATACCTCAATTTGTAAAATTACTGAAATAACCTCGATTTGTAAAATT
1 ATTACT-GAAATA-C------CCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
* ** *
53028800 ACTGAAATACCCTCGATTTGTAAA
58 ACCGAAATA-CCTTTAATTGTAAA
* * * *
53028824 ATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCC-CTGATTTGTAAAATTATCGAAA
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTACCGAAA
* *
53028888 TACCCTTATAGTGTAAA
65 TACCTTTA-ATTGTAAA
* * * * *
53028905 ATTACCGAAATACCCTTACA-GTGTAAAATGACCGACATACCC
1 ATTACTGAAATACCCTCA-ATTTGTAAAATTACCGAAATACCC
53028947 CTATAGGGTA
Statistics
Matches: 375, Mismatches: 61, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
79 21 0.06
80 157 0.42
81 123 0.33
82 4 0.01
87 1 0.00
88 68 0.18
89 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (80 bp):
ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAAT
ACCTTTAATTGTAAA
Found at i:53028789 original size:142 final size:142
Alignment explanation
Indices: 53028604--53028891 Score: 388
Period size: 142 Copynumber: 2.0 Consensus size: 142
53028594 TTTGTAAAAT
* *
53028604 TACCGAAATACCGTCGATTGTGAAATTACCAAAATACCTTCGATTTGTAAAATTA-TCAAAATAC
1 TACCGAAATACCGTCAATTGTAAAATTACCAAAATACCTTCGATTTGTAAAATTACT-AAAATAC
* * ** *
53028668 CCTCGATTTGTAAAATTA-TCGAAACACCCCCGATTTGTAAAATTACTTAAATATCCCC-GATTT
65 CCTCGATTTGTAAAATTACT-AAAACACCCCCAATTTGTAAAATTACCAAAACA-CCCCTGATTT
53028731 GTAAAATTATCGAAA
128 GTAAAATTATCGAAA
** *
53028746 TACCGAAATACC-TCAATTTGTAAAATTACTGAAATAACC-TCGATTTGTAAAATTACTGAAATA
1 TACCGAAATACCGTCAA-TTGTAAAATTACCAAAAT-ACCTTCGATTTGTAAAATTACTAAAATA
* *
53028809 CCCTCGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTG
64 CCCTCGATTTGTAAAATTACTAAAACACCCCCAATTTGTAAAATTACCAAAACACCCCTGATTTG
53028874 TAAAATTATCGAAA
129 TAAAATTATCGAAA
53028888 TACC
1 TACC
53028892 CTTATAGTGT
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
141 7 0.05
142 117 0.91
143 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (142 bp):
TACCGAAATACCGTCAATTGTAAAATTACCAAAATACCTTCGATTTGTAAAATTACTAAAATACC
CTCGATTTGTAAAATTACTAAAACACCCCCAATTTGTAAAATTACCAAAACACCCCTGATTTGTA
AAATTATCGAAA
Found at i:53028848 original size:115 final size:117
Alignment explanation
Indices: 53028625--53028854 Score: 326
Period size: 115 Copynumber: 2.0 Consensus size: 117
53028615 CGTCGATTGT
* *
53028625 GAAATTACCAAAATACCTTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCGA
1 GAAATTACCAAAATACCTTCAATTTGTAAAATTATCAAAATAACCTCGATTTGTAAAATTATCGA
* *
53028690 AACACCCCCGATTTGTAAAATTACTTAAATATCCCCGATTTGTAAAATTATC
66 AACACCCCCGATTTGTAAAATTACTAAAATATCCCCAATTTGTAAAATTATC
* *
53028742 GAAA-TACCGAAATACC-TCAATTTGTAAAATTA-CTGAAATAACCTCGATTTGTAAAATTA-CT
1 GAAATTACCAAAATACCTTCAATTTGTAAAATTATC-AAAATAACCTCGATTTGTAAAATTATC-
* *
53028803 GAAATACCCTCGATTTGTAAAATTACTAAAATA-CCCTCAATTTGTAAAATTA
64 GAAACACCCCCGATTTGTAAAATTACTAAAATATCCC-CAATTTGTAAAATTA
53028855 CCAAAACACC
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
114 5 0.05
115 82 0.80
116 11 0.11
117 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (117 bp):
GAAATTACCAAAATACCTTCAATTTGTAAAATTATCAAAATAACCTCGATTTGTAAAATTATCGA
AACACCCCCGATTTGTAAAATTACTAAAATATCCCCAATTTGTAAAATTATC
Found at i:53028922 original size:27 final size:27
Alignment explanation
Indices: 53028746--53028946 Score: 162
Period size: 27 Copynumber: 7.5 Consensus size: 27
53028736 ATTATCGAAA
*
53028746 TACCGAAATA-CCTCA-ATTTGTAAAAT
1 TACCGAAATACCCTGATA-TTGTAAAAT
* *
53028772 TACTGAAATAACCTCGAT-TTGTAAAAT
1 TACCGAAATACCCT-GATATTGTAAAAT
*
53028799 TACTGAAATACCCTCGAT-TTGTAAAAT
1 TACCGAAATACCCT-GATATTGTAAAAT
** *
53028826 TACTAAAATACCCTCA-ATTTGTAAAAT
1 TACCGAAATACCCTGATA-TTGTAAAAT
* *
53028853 TACCAAAACACCCCTGAT-TTGTAAAAT
1 TACCGAAATA-CCCTGATATTGTAAAAT
* * *
53028880 TATCGAAATACCCTTATAGTGTAAAAT
1 TACCGAAATACCCTGATATTGTAAAAT
* * *
53028907 TACCGAAATACCCTTACAGTGTAAAAT
1 TACCGAAATACCCTGATATTGTAAAAT
* *
53028934 GACCGACATACCC
1 TACCGAAATACCC
53028947 CTATAGGGTA
Statistics
Matches: 150, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
26 16 0.11
27 128 0.85
28 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCGAAATACCCTGATATTGTAAAAT
Found at i:53028948 original size:81 final size:81
Alignment explanation
Indices: 53028787--53028937 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
53028777 AAATAACCTC
* * *
53028787 GATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAA
1 GATTTGTAAAATTACTGAAATACCCTCGATGTGTAAAATTACCAAAATACCCTCAATGTGTAAAA
*
53028852 TTACCAAAACACCCCT
66 TGACCAAAACACCCCT
* * *
53028868 GATTTGTAAAATTA-TCGAAATACCCT-TATAGTGTAAAATTACCGAAATACCCTTACA-GTGTA
1 GATTTGTAAAATTACT-GAAATACCCTCGAT-GTGTAAAATTACCAAAATACCCTCA-ATGTGTA
53028930 AAATGACC
63 AAATGACC
53028938 GACATACCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 3 0.05
81 56 0.93
82 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
GATTTGTAAAATTACTGAAATACCCTCGATGTGTAAAATTACCAAAATACCCTCAATGTGTAAAA
TGACCAAAACACCCCT
Found at i:53028957 original size:27 final size:27
Alignment explanation
Indices: 53028872--53028961 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
53028862 ACCCCTGATT
* *
53028872 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
* *
53028899 TGTAAAATTACCGAAATACCCTTACAG
1 TGTAAAATGACCGAAATACCCTTATAG
* *
53028926 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
*
53028953 GGTAAAATG
1 TGTAAAATG
53028962 GCTGTTTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTATAG
Found at i:53031897 original size:20 final size:20
Alignment explanation
Indices: 53031797--53031932 Score: 69
Period size: 20 Copynumber: 6.8 Consensus size: 20
53031787 GTGAAATCAA
* *
53031797 GGGTACCGAAGTACAAATAG
1 GGGTACCGAAGTACAAACAT
* ** * * *
53031817 GGGCACATAAGTGCAATCAA
1 GGGTACCGAAGTACAAACAT
* * *
53031837 GGGTATCGAAGTATAAACAG
1 GGGTACCGAAGTACAAACAT
* * *
53031857 GGGCA-CGTAAGTGCAATCAT
1 GGGTACCG-AAGTACAAACAT
53031877 GGGTACCGAAGTACAAACAT
1 GGGTACCGAAGTACAAACAT
* * * *
53031897 GGGCA-TGTAAGTGCAATCAT
1 GGGTACCG-AAGTACAAACAT
*
53031917 GGGTACTGAAGTACAA
1 GGGTACCGAAGTACAA
53031933 TCAGGGGCAC
Statistics
Matches: 83, Mismatches: 29, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
19 3 0.04
20 76 0.92
21 4 0.05
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (20 bp):
GGGTACCGAAGTACAAACAT
Found at i:53031933 original size:20 final size:20
Alignment explanation
Indices: 53031865--53031935 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
53031855 AGGGGCACGT
* *
53031865 AAGTGCAATCATGGGTACCG
1 AAGTACAATCATGGGTACTG
* *
53031885 AAGTACAAACATGGGCA-TG
1 AAGTACAATCATGGGTACTG
*
53031904 TAAGTGCAATCATGGGTACTG
1 -AAGTACAATCATGGGTACTG
53031925 AAGTACAATCA
1 AAGTACAATCA
53031936 GGGGCACGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.02
20 38 0.93
21 2 0.05
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (20 bp):
AAGTACAATCATGGGTACTG
Found at i:53031939 original size:120 final size:120
Alignment explanation
Indices: 53031726--53031942 Score: 319
Period size: 120 Copynumber: 1.8 Consensus size: 120
53031716 GAGTTACCAG
* * * * *
53031726 AGTATAAAGAGGGGCACATAAGTGCATTCAGGGGTACCGGATTATAAACAGGGGCATGTAAGTGA
1 AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
53031791 AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
66 AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
* * * *
53031846 AGTATAAACAGGGGCACGTAAGTGCAATCATGGGTACCGAAGTACAAACATGGGCATGTAAGTGC
1 AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
* *
53031911 AATCATGGGTACTGAAGTAC-AATCAGGGGCAC
66 AATCAAGGGTACCGAAGTACAAAT-AGGGGCAC
53031943 GCAAATGTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
119 3 0.04
120 82 0.96
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (120 bp):
AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
Found at i:53031956 original size:40 final size:40
Alignment explanation
Indices: 53031726--53031943 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
53031716 GAGTTACCAG
* * * * * *
53031726 AGTATAAAGAGGGGCACATAAGTGCATTCAGGGGTACCGG
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * * * *
53031766 ATTATAAACAGGGGCATGTAAGTGAAATCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * * *
53031806 AGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
*
53031846 AGTATAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * *
53031886 AGTACAAACATGGGCATGTAAGTGCAATCATGGGTACTGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
*
53031926 AGTACAATCAGGGGCACG
1 AGTACAAACAGGGGCACG
53031944 CAAATGTAAT
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
Found at i:53033376 original size:24 final size:23
Alignment explanation
Indices: 53033340--53033386 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
53033330 CCCTTTCCCA
* *
53033340 CTCACTTCTTTATTTCTCCTTAT
1 CTCACTTCCTTATGTCTCCTTAT
53033363 CTCACCTTCCTTATGTCTCCTTAT
1 CTCA-CTTCCTTATGTCTCCTTAT
53033387 AGGAAATCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.13, C:0.34, G:0.02, T:0.51
Consensus pattern (23 bp):
CTCACTTCCTTATGTCTCCTTAT
Found at i:53038477 original size:20 final size:20
Alignment explanation
Indices: 53038427--53038478 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
53038417 TTGTGGTCTC
*
53038427 ACACGCCCGTATGGCTCTAG
1 ACACGCCCGTGTGGCTCTAG
*
53038447 ACACGCTCGTGTGGCTCTAG
1 ACACGCCCGTGTGGCTCTAG
53038467 ACACGCCCGTGT
1 ACACGCCCGTGT
53038479 CTTCAGCCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.35, G:0.27, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTCTAG
Found at i:53038589 original size:13 final size:13
Alignment explanation
Indices: 53038571--53038605 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
53038561 CCGTGTCTTC
*
53038571 CACACGGCTGAGA
1 CACACGGCCGAGA
53038584 CACACGGCCGAGA
1 CACACGGCCGAGA
53038597 CACACGGCC
1 CACACGGCC
53038606 ATGTCTCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.40, G:0.29, T:0.03
Consensus pattern (13 bp):
CACACGGCCGAGA
Found at i:53040239 original size:23 final size:23
Alignment explanation
Indices: 53040212--53040257 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
53040202 ATGCTCCTAG
*
53040212 GTTTTGAGAACATACCTGTGCTA
1 GTTTTAAGAACATACCTGTGCTA
53040235 GTTTTAAGAACATACCTGTGCTA
1 GTTTTAAGAACATACCTGTGCTA
53040258 TCTCTAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (23 bp):
GTTTTAAGAACATACCTGTGCTA
Found at i:53040265 original size:23 final size:23
Alignment explanation
Indices: 53040218--53040265 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
53040208 CTAGGTTTTG
*
53040218 AGAACATACCTGTGCTAGTTTTA
1 AGAACATACCTGTGCTAGTTCTA
53040241 AGAACATACCTGTGCTA-TCTCTA
1 AGAACATACCTGTGCTAGT-TCTA
53040264 AG
1 AG
53040266 CACCACCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (23 bp):
AGAACATACCTGTGCTAGTTCTA
Found at i:53042884 original size:40 final size:40
Alignment explanation
Indices: 53042820--53043031 Score: 315
Period size: 40 Copynumber: 5.3 Consensus size: 40
53042810 CCTTTGGGAT
* *
53042820 TTAG-CCGGATATAG-CAACTCGCACAAATACCTTCGGGTC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
53042859 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAT-
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGG-TC
* * *
53042899 TTAGCCCGGGTATAGTCACTAGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
53042939 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
53042979 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGTAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGT-C
53043019 TTAGCCCGGATAT
1 TTAGCCCGGATAT
53043032 CATTCAAATA
Statistics
Matches: 160, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 6 0.04
40 152 0.95
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:53050956 original size:40 final size:40
Alignment explanation
Indices: 53050880--53051100 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
53050870 AACCCAAGTA
* * * *
53050880 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGAACAAATA
1 CCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
53050919 CCTTCGGGTTTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
53050959 CCTTCGGGATTTAGCCCGG-TATAGTCACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
*
53050998 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
53051038 CCTTCGGGACTTAGCCCAGATATAGCCACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
53051078 CCTTCGGGATTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATAT
53051101 CATTCGAATA
Statistics
Matches: 168, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 51 0.30
40 116 0.69
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:53051012 original size:79 final size:78
Alignment explanation
Indices: 53050880--53051100 Score: 318
Period size: 79 Copynumber: 2.8 Consensus size: 78
53050870 AACCCAAGTA
* * * * *
53050880 CCTTCGGGATTTAG-TCGGATATAGCAACTCGAACAAATACCTTCGGGTTTTAGCCCGGATATAG
1 CCTTCGGGATTTAGCCCGG-TATAGC-ACTAGCACAAATGCCTTCGGGATTTAGCCCGGATATAG
53050944 TCACTAGCACAAATG
64 TCACTAGCACAAATG
*
53050959 CCTTCGGGATTTAGCCCGGTATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGATTTAGCCCGGTATAG-CACTAGCACAAATGCCTTCGGGATTTAGCCCGGATATAGT
53051024 CACTAGCACAAATG
65 CACTAGCACAAATG
* *
53051038 CCTTCGGGACTTAGCCCAGATATAGCCACTAGCACAAATGCCTTCGGGATTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCC-GGTATAG-CACTAGCACAAATGCCTTCGGGATTTAGCCCGGATAT
53051101 CATTCGAATA
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
79 83 0.64
80 46 0.36
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (78 bp):
CCTTCGGGATTTAGCCCGGTATAGCACTAGCACAAATGCCTTCGGGATTTAGCCCGGATATAGTC
ACTAGCACAAATG
Found at i:53054948 original size:21 final size:21
Alignment explanation
Indices: 53054924--53054965 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
53054914 AATAACATAG
53054924 GTTAACTATCAAAAATAAAAC
1 GTTAACTATCAAAAATAAAAC
53054945 GTTAACTATCAAAAATAAAAC
1 GTTAACTATCAAAAATAAAAC
53054966 ATAGCTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (21 bp):
GTTAACTATCAAAAATAAAAC
Found at i:53056075 original size:25 final size:25
Alignment explanation
Indices: 53056027--53056084 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
53056017 ATAAAACCTA
*
53056027 AAAATGAAATAGTATTAAATGAAGAT
1 AAAAT-AAAAAGTATTAAATGAAGAT
53056053 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAGAT
53056078 -AAATAAA
1 AAAATAAA
53056085 GATAAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 10 0.33
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAGAT
Found at i:53056107 original size:18 final size:17
Alignment explanation
Indices: 53056078--53056127 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
53056068 TAAAGAAGAT
* *
53056078 AAATAAAGATAAAAGTGA
1 AAATAAA-ATAAAAATAA
53056096 AAATGAAAATAAAAATAA
1 AAAT-AAAATAAAAATAA
53056114 AAATAAAATAAAAA
1 AAATAAAATAAAAA
53056128 GTCTTCAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 10 0.34
18 16 0.55
19 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:53056127 original size:6 final size:6
Alignment explanation
Indices: 53056078--53056127 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
53056068 TAAAGAAGAT
* * * *
53056078 AAATAA AGATAA AAGTGA AAATGA AAATAA AAATAA AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
53056125 AAA
1 AAA
53056128 GTCTTCAACC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:53060308 original size:40 final size:40
Alignment explanation
Indices: 53060264--53060393 Score: 206
Period size: 40 Copynumber: 3.2 Consensus size: 40
53060254 CTAAGTCCGG
* * *
53060264 ATATAGTACCAGCACTAAGCCTGTGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
53060304 ATATATTACCAGCACGAAACCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
53060346 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
53060386 ATATATTA
1 ATATATTA
53060394 TATCGAGAGC
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
40 44 0.53
42 39 0.47
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:53060361 original size:42 final size:42
Alignment explanation
Indices: 53060264--53060391 Score: 206
Period size: 42 Copynumber: 3.1 Consensus size: 42
53060254 CTAAGTCCGG
* * *
53060264 ATATAGTACCAGCACTAAGCCTGTGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
53060304 ATATATTACCAGCACGAAACCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
53060346 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
53060388 ATAT
1 ATAT
53060392 TATATCGAGA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 34 0.42
42 47 0.58
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:53068277 original size:46 final size:46
Alignment explanation
Indices: 53068114--53068286 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
53068104 TGTAACCCGC
* * * *
53068114 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCAT
* * * * * * *
53068160 CCATGAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCAT
*
53068210 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
*
53068253 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
53068287 GGATGCTCAA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 4 0.04
46 54 0.54
47 24 0.24
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:53068280 original size:93 final size:93
Alignment explanation
Indices: 53068121--53068292 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
53068111 CGCCCATAAG
* * * * *
53068121 CGAACTCGGACTCAACTCAACGAGCTTGGGCATTCGTATCCATGAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53068186 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
53068214 CGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTT-AGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
53068278 AACGAGTTCGGATGC
65 AACGAGCTCGGATGC
53068293 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:53070802 original size:42 final size:41
Alignment explanation
Indices: 53070749--53070878 Score: 190
Period size: 42 Copynumber: 3.1 Consensus size: 41
53070739 CTAAGTCCGG
* * *
53070749 ATATA-ATACCAGCACTAAGCTTGCGAGATTTAACCCGGAT
1 ATATATATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
53070789 ATATATATCACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATAT-ACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
**
53070831 ATATATATTACCAGCACGAAGCCTGCGGGATTTAACCCTTAT
1 ATATATA-TACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
53070873 ATATAT
1 ATATAT
53070879 TATATCGAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
40 5 0.06
41 2 0.02
42 74 0.90
43 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
ATATATATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:53073351 original size:39 final size:39
Alignment explanation
Indices: 53073250--53073511 Score: 377
Period size: 39 Copynumber: 6.6 Consensus size: 39
53073240 TTGAATGTTG
* *
53073250 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
53073289 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
53073330 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
53073369 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
53073408 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
53073447 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
53073486 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
53073512 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 150 0.73
40 44 0.21
41 11 0.05
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:53073544 original size:39 final size:40
Alignment explanation
Indices: 53073303--53073544 Score: 126
Period size: 39 Copynumber: 6.2 Consensus size: 40
53073293 GGACTAAGAT
** * * *
53073303 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * * *
53073342 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * * *
53073381 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * * * *
53073420 CCGAAGGCATTTGTGCGAGAT-ACTAATTTCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * *
53073459 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATC
* *
53073499 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATC
53073538 CCGAAGG
1 CCGAAGG
53073545 TACGTGATTT
Statistics
Matches: 188, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 161 0.86
40 26 0.14
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATC
Found at i:53080760 original size:39 final size:40
Alignment explanation
Indices: 53080659--53080842 Score: 236
Period size: 39 Copynumber: 4.7 Consensus size: 40
53080649 TTGAATGTTG
* *
53080659 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
53080698 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
53080739 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
53080778 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
53080817 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53080843 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 74 0.56
40 44 0.34
41 12 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:53088015 original size:27 final size:26
Alignment explanation
Indices: 53087971--53088021 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
53087961 CCTCACTGAA
*
53087971 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
53087998 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
53088022 GGCAACCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:53088089 original size:71 final size:66
Alignment explanation
Indices: 53087953--53088093 Score: 174
Period size: 71 Copynumber: 2.1 Consensus size: 66
53087943 GAGGAAGCGT
* * * *
53087953 TCTGGCAGCCTCACTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAAT
1 TCTGGCAACCTCACTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAAT
53088018 A
66 A
* * *
53088019 TCTGGCAACCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTATTCTGGTGCCCTAGCC
1 TCTGGCAACCTCACTG-AATCTGGTGGCCTCGCCAC----ATATATCTATTCTGGTGACCTAGCC
53088084 ACAATA
61 ACAATA
53088090 TCTG
1 TCTG
53088094 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 14 0.22
67 18 0.29
71 31 0.49
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.30
Consensus pattern (66 bp):
TCTGGCAACCTCACTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAAT
A
Found at i:53088101 original size:27 final size:26
Alignment explanation
Indices: 53088061--53088120 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53088051 CCACATATAT
* *
53088061 ATATCTATTCTGGTGCCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
53088087 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
53088114 ATATCTG
1 ATATCTG
53088121 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:53094291 original size:39 final size:39
Alignment explanation
Indices: 53094133--53094355 Score: 265
Period size: 40 Copynumber: 5.7 Consensus size: 39
53094123 GCTACTCGTT
* *
53094133 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
53094173 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
53094213 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* *
53094251 CAAATGCCTTCGGG-CTTAGCCAGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
53094290 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
53094331 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53094356 CATCATTCAA
Statistics
Matches: 161, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 36 0.22
39 37 0.23
40 76 0.47
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:53094315 original size:117 final size:119
Alignment explanation
Indices: 53094133--53094355 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 119
53094123 GCTACTCGTT
* *
53094133 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCAGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
53094198 ATTTAGTAACTCA-CACAAATGCCTTCGGG-CTTAGCCCGGATTAGTATCTCGCA
66 ATATAGTAACTCAGCACAAA-GCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
* * **
53094251 CAAATGCCTTCGGG-CTTAGCCAGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCAGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
53094313 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTCAGCACAAAGCCTTCGGGACTTAGCCCGGA
53094356 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
116 4 0.04
117 56 0.62
118 31 0.34
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCAGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCAGCACAAAGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
Found at i:53096192 original size:40 final size:40
Alignment explanation
Indices: 53096155--53096340 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
53096145 GCTACTCGTT
* *
53096155 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
53096195 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
53096235 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
53096275 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
53096316 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53096341 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.87
41 14 0.11
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53096259 original size:80 final size:81
Alignment explanation
Indices: 53096122--53096340 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 81
53096112 AAATCACGTA
* * ** *
53096122 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATT-
*
53096183 TAGTAACTCGCACAAATG
64 TAGTAACTCACACAAATG
* * *
53096201 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTT
53096264 AGTAACTCACACAAATG
65 AGTAACTCACACAAATG
** * *
53096281 CCTTCGGATCTTAGTCCGGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
53096341 CATCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
79 13 0.11
80 94 0.79
81 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCACACAAATG
Found at i:53098995 original size:79 final size:82
Alignment explanation
Indices: 53098859--53099043 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
53098849 TTGAATGATG
* *
53098859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
53098923 TGTGCGAGATACTA-AT
66 TGTGCGAGATACTATAA
* * * **
53098939 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
53099001 TTGTGCGAGTTACTATAA
65 TTGTGCGAGATACTATAA
*
53099019 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53099044 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATAA
Found at i:53099050 original size:40 final size:40
Alignment explanation
Indices: 53098859--53099043 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
53098849 TTGAATGATG
* * * *
53098859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
53098899 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
53098939 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53098978 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53099019 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53099044 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53099065 original size:79 final size:79
Alignment explanation
Indices: 53098912--53099076 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
53098902 GGACTAAGAT
* * **
53098912 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
53098977 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53098991 CCGAAGGCAATTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTA-AATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
53099054 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53099070 CCGAAGG
1 CCGAAGG
53099077 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 47 0.64
80 27 0.36
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53106393 original size:47 final size:47
Alignment explanation
Indices: 53106321--53106856 Score: 776
Period size: 47 Copynumber: 11.3 Consensus size: 47
53106311 CCCTTCGGGA
* * * *
53106321 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCAGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
53106368 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
53106415 CTTATCTCATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
53106462 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
53106509 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53106556 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
53106603 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
53106652 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
53106699 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53106746 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
53106793 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
53106842 CCTATCACATATATA
1 CTTATCACATATATA
53106857 TACTTGTACA
Statistics
Matches: 454, Mismatches: 27, Indels: 16
0.91 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 369 0.81
49 81 0.18
50 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:53106683 original size:190 final size:190
Alignment explanation
Indices: 53106342--53106855 Score: 908
Period size: 190 Copynumber: 2.7 Consensus size: 190
53106332 TATACACTTC
* * * *
53106342 CACATCCATCACATTGGCCATTCAGCCTTATCACATATATACACT-TTCACATTCATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGG
* *
53106406 CCATTCGGCCTTAT--CTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
65 CCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
*
53106469 CATATATGCATGTTCACATTCATCACATTGGCCATTTGGCCTTATCACACATATACATGTT
130 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
53106530 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
53106595 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
66 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
53106660 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
131 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
53106720 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
* * *
53106785 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGCCCTATCAC
66 CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
53106850 ATATAT
131 ATATAT
53106856 ATACTTGTAC
Statistics
Matches: 313, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
187 1 0.00
188 72 0.23
190 240 0.77
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (190 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
Found at i:53111898 original size:79 final size:81
Alignment explanation
Indices: 53111763--53111946 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
53111753 TGAATGATGT
* *
53111763 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
53111827 GTGCGAGATACTA-ATA
66 GTGCGAGATACTATA-A
* * * **
53111843 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
53111905 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
53111922 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53111947 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:53111960 original size:40 final size:39
Alignment explanation
Indices: 53111763--53111946 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
53111753 TGAATGATGT
* * * *
53111763 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
53111803 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
53111843 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53111881 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53111922 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53111947 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53111968 original size:79 final size:79
Alignment explanation
Indices: 53111815--53111979 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
53111805 GGACTAAGAT
* **
53111815 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
53111880 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53111894 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
53111957 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53111973 CCGAAGG
1 CCGAAGG
53111980 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53113361 original size:6 final size:7
Alignment explanation
Indices: 53113344--53113369 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53113334 AATCTTCAAA
53113344 AAAAATT
1 AAAAATT
53113351 AAAAATT
1 AAAAATT
53113358 AAAAATT
1 AAAAATT
53113365 AAAAA
1 AAAAA
53113370 ACTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:53113518 original size:10 final size:10
Alignment explanation
Indices: 53113483--53113512 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
53113473 AAAATTTGAA
53113483 AGAAAAAAAT
1 AGAAAAAAAT
53113493 AGAAAAAAAT
1 AGAAAAAAAT
*
53113503 GGAAAAAAAT
1 AGAAAAAAAT
53113513 TTAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:53115100 original size:34 final size:34
Alignment explanation
Indices: 53115060--53115191 Score: 184
Period size: 34 Copynumber: 4.0 Consensus size: 34
53115050 ATGTAATTGG
*
53115060 AAATTTTATTTCTTTTTGTAAATCATTTTTCTTT
1 AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
*
53115094 AAATTTTATTTCTTTGTGTAAATAATTTTTCTTT
1 AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
* *
53115128 AAATTTTATTTATTTGTGT--A--ATTTCTCTTT
1 AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
53115158 AAATTTTATTAT-TTTGTGTAAATCATTTTTCTTT
1 AAATTTTATT-TCTTTGTGTAAATCATTTTTCTTT
53115192 GTTTAGTGAC
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
30 26 0.30
31 1 0.01
32 2 0.02
34 59 0.67
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (34 bp):
AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
Found at i:53115150 original size:30 final size:30
Alignment explanation
Indices: 53115084--53115178 Score: 120
Period size: 30 Copynumber: 3.0 Consensus size: 30
53115074 TTTGTAAATC
*
53115084 ATTTTTCTTTAAATTTTATTTCTTTGTGTAAATA
1 ATTTTTCTTTAAATTTTATTTATTTGTG----TA
53115118 ATTTTTCTTTAAATTTTATTTATTTGTGTA
1 ATTTTTCTTTAAATTTTATTTATTTGTGTA
*
53115148 ATTTCTCTTTAAATTTTA-TTATTTTGTGTA
1 ATTTTTCTTTAAATTTTATTTA-TTTGTGTA
53115178 A
1 A
53115179 ATCATTTTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 3 0.05
30 28 0.48
34 27 0.47
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (30 bp):
ATTTTTCTTTAAATTTTATTTATTTGTGTA
Found at i:53117946 original size:43 final size:42
Alignment explanation
Indices: 53117899--53118031 Score: 149
Period size: 43 Copynumber: 3.1 Consensus size: 42
53117889 AAAGTTAGTC
* *
53117899 TTAGCGGCGTTTGTAAAAAAGGCGTCGCTAAAGGTCATGGTCT
1 TTAGCGGCGTTTGCAAAAAA-GCGCCGCTAAAGGTCATGGTCT
* ** **
53117942 TTAGCGGCGTTTGCAGGAAAAGCGCCGCTAAAGACCATGACCT
1 TTAGCGGCGTTTGCA-AAAAAGCGCCGCTAAAGGTCATGGTCT
* * *
53117985 TTAGCGGCATTTGCAAAAAAAGCGCCTCTAAAAGTCATGGTCT
1 TTAGCGGCGTTTGC-AAAAAAGCGCCGCTAAAGGTCATGGTCT
53118028 TTAG
1 TTAG
53118032 TGGCTTTTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
43 68 0.93
44 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (42 bp):
TTAGCGGCGTTTGCAAAAAAGCGCCGCTAAAGGTCATGGTCT
Found at i:53130782 original size:40 final size:40
Alignment explanation
Indices: 53130713--53130933 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
53130703 ATTCGGATTG
*
53130713 ATAACCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
53130752 ATATCCAGGCTATGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
53130792 ATAACCGGGCCAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53130832 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53130872 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
53130912 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
53130934 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.16
40 137 0.84
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53133214 original size:39 final size:38
Alignment explanation
Indices: 53133140--53133214 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 38
53133130 TGTTTTTACT
* *
53133140 TCCATCAAGGTAACCGTTAAATTTCCCATATTTTTTCA
1 TCCATCAAGGTAACCGTTAAAATTCCCATAATTTTTCA
53133178 TCCATCAAGGTAACCGTTAAAATTCCCATTAATTTTT
1 TCCATCAAGGTAACCGTTAAAATTCCCA-TAATTTTT
53133215 AATGTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 27 0.79
39 7 0.21
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (38 bp):
TCCATCAAGGTAACCGTTAAAATTCCCATAATTTTTCA
Found at i:53135712 original size:40 final size:40
Alignment explanation
Indices: 53135628--53135845 Score: 173
Period size: 40 Copynumber: 5.5 Consensus size: 40
53135618 TTGAATGATG
* * * *
53135628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAATA
* *
53135668 TCCGGATTAAGATCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
53135708 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACT-ATA
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATA
*
53135747 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATA
* * * **
53135787 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT-ATA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTAATA
*
53135827 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTT-AAGTCCGAAGG
53135846 TACGTGATTT
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 43 0.29
40 93 0.63
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:53135728 original size:39 final size:40
Alignment explanation
Indices: 53135629--53135812 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
53135619 TGAATGATGT
* * * *
53135629 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
** * *
53135669 CCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
53135709 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53135748 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53135788 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53135813 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 33 0.27
40 82 0.67
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:53135764 original size:79 final size:81
Alignment explanation
Indices: 53135628--53135810 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
53135618 TTGAATGATG
* *
53135628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCATAACCGGATTAAGATCCGAAGGCATT
53135692 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * *
53135707 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCATAACCGGATTAAGAT-CCGAAGGCA
*
53135769 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
53135787 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53135811 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCATAACCGGATTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:53135834 original size:79 final size:77
Alignment explanation
Indices: 53135665--53135845 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 77
53135655 CTAAGTGACC
*
53135665 ATATCCGGATTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAT
**
53135730 TGGTGCGAGTTACT
64 TGGAACGAGTTACT
* * *
53135744 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
53135808 ATTTGAACGAG-TAGCT
62 ATTGGAACGAGTTA-CT
*
53135824 ATATCCGGTTAAATTCCGAAGG
1 ATATCCGGTT-AAGTCCGAAGG
53135846 TACGTGATTT
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 55 0.63
80 29 0.33
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (77 bp):
ATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGTTACT
Found at i:53142338 original size:7 final size:7
Alignment explanation
Indices: 53142320--53142360 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
53142310 TTACCCTTTG
53142320 TATTTAAT
1 TATTT-AT
53142328 TATTTAT
1 TATTTAT
53142335 TATTTAT
1 TATTTAT
53142342 TATTTAT
1 TATTTAT
*
53142349 AATTTTAT
1 TA-TTTAT
53142357 TATT
1 TATT
53142361 ATTTCATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 19 0.63
8 11 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATTTAT
Found at i:53142340 original size:15 final size:14
Alignment explanation
Indices: 53142320--53142360 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
53142310 TTACCCTTTG
53142320 TATTTAATTATTTAT
1 TATTT-ATTATTTAT
53142335 TATTTATTATTTAT
1 TATTTATTATTTAT
*
53142349 AATTTTATTATT
1 TA-TTTATTATT
53142361 ATTTCATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTATTATTTAT
Found at i:53142469 original size:19 final size:18
Alignment explanation
Indices: 53142435--53142491 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
53142425 TCAAGTTGTT
53142435 TTTCTTTCTATTATTTTA
1 TTTCTTTCTATTATTTTA
*
53142453 TTTCTTTACTGTTATTTTA
1 TTTCTTT-CTATTATTTTA
*
53142472 TTTCTTT-TAGTTATTATA
1 TTTCTTTCTA-TTATTTTA
53142490 TT
1 TT
53142492 GTTTCTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.03
18 16 0.47
19 17 0.50
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCTTTCTATTATTTTA
Found at i:53144466 original size:23 final size:23
Alignment explanation
Indices: 53144421--53144467 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
53144411 AGAATGAATT
**
53144421 TTTATTGATTTGGGATTTTTTTG
1 TTTATTGATTTGGGATTAATTTG
53144444 TTTATATG-TTTGGGATTAATTTG
1 TTTAT-TGATTTGGGATTAATTTG
53144467 T
1 T
53144468 AGATATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (23 bp):
TTTATTGATTTGGGATTAATTTG
Found at i:53144473 original size:23 final size:23
Alignment explanation
Indices: 53144429--53144473 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
53144419 TTTTTATTGA
** **
53144429 TTTGGGATTTTTTTGTTTATATG
1 TTTGGGATTAATTTGTAGATATG
53144452 TTTGGGATTAATTTGTAGATAT
1 TTTGGGATTAATTTGTAGATAT
53144474 TTGTGCATTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (23 bp):
TTTGGGATTAATTTGTAGATATG
Found at i:53145180 original size:19 final size:19
Alignment explanation
Indices: 53145144--53145179 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
53145134 ATGGTTCTTG
53145144 ATTTATGCACTTGTTTTTA
1 ATTTATGCACTTGTTTTTA
*
53145163 ATTTA-GCATTTGTTTTT
1 ATTTATGCACTTGTTTTT
53145180 TTTCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTATGCACTTGTTTTTA
Found at i:53177149 original size:79 final size:81
Alignment explanation
Indices: 53177038--53177222 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
53177028 GCTACTCGTT
* *
53177038 CAAAGGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
53177101 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
53177118 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 -CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
53177181 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
*
53177198 CAAAGCCTTCGGGACTTAGCTCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
53177223 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 60 0.67
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:53177216 original size:40 final size:40
Alignment explanation
Indices: 53177019--53177222 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
53177009 CAGAATTTAA
** * *
53177019 CCGGATATAGCT-ACTCGTTCAAAGGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53177059 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53177099 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
53177138 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
53177178 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
*
53177218 TCGGA
1 CCGGA
53177223 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53185763 original size:131 final size:132
Alignment explanation
Indices: 53185519--53185879 Score: 302
Period size: 131 Copynumber: 2.8 Consensus size: 132
53185509 GGGATCTTCA
* * * * * * * * *
53185519 ATTATTTTGAGCAAATGAAAAAGCGCAACCCAGCACGATAGGGCTCGATT-CTCAAATCGCCAAA
1 ATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAA
* * * * * *** **
53185583 TATCGAACATCGCCTTTGTTTTTCAAG-GTTTTCA-ATAAACATGAATGAAAACCTAAAGGAATA
66 TACCGAACATCGCCTTCG-TTTTAAAGAATTTTTAGA-AGGTATGCGTGAAAACCTAAAGGAATA
53185646 TTCG
129 TTCG
* * *
53185650 ATTGTTTTGAA-CAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCC-CGAATTGTCAA
1 ATTATTTT-AAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAA
* * * *** * *
53185713 ATGCCGAATATTGCCTTCGTTTTAAATG-ATTTTTAGAAGGTATGCGTGAAATTTTGAAGGGATA
65 ATACCGAACATCGCCTTCGTTTTAAA-GAATTTTTAGAAGGTATGCGTGAAAACCTAAAGGAATA
*
53185777 TTTG
129 TTCG
*** * *
53185781 ATTATTTTAAGCAAACGAGAAATTGTAACCCAGCACGTTTGGGCACGATTCCGCGAATTGCCAAA
1 ATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAA
* *
53185846 TATCGCACATCGCCTTCGTTTTAAAGAATTTTTA
66 TACCGAACATCGCCTTCGTTTTAAAGAATTTTTA
53185880 AATGATTGAT
Statistics
Matches: 180, Mismatches: 43, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
130 8 0.04
131 131 0.73
132 41 0.23
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (132 bp):
ATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAA
TACCGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAGGTATGCGTGAAAACCTAAAGGAATATT
CG
Found at i:53188236 original size:44 final size:44
Alignment explanation
Indices: 53188188--53188768 Score: 919
Period size: 44 Copynumber: 13.2 Consensus size: 44
53188178 CTCAGGAACA
*
53188188 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
53188232 CCAAATCTGCTATCTTTGATCTGCTCTCCGCCAACACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* ** *
53188276 CTAAATCTGCTATCTTCGATCTGCTCTCTACCAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
53188320 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * * *
53188364 CCAAATCTACTATCTTCGATCTACTTTCCGCCAACACAAAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
53188408 CCAAATTTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
53188452 CCAAATCGGCTATCTTCGATCTACTCTTCGCTAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
53188496 CCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
53188540 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGAGG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
53188584 CCAAATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
53188628 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
53188672 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
53188716 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
53188760 CCAAATCTG
1 CCAAATCTG
53188769 TCTGGTCTTA
Statistics
Matches: 487, Mismatches: 50, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 487 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
Found at i:53189151 original size:131 final size:130
Alignment explanation
Indices: 53188948--53189874 Score: 949
Period size: 131 Copynumber: 7.1 Consensus size: 130
53188938 TCGAGAAGAT
* * * * * *
53188948 AAGACCTACAATCCTCAGCCCACTTCACTACAAATTTAGAGAGCTAGGACTTGCTTAAATATGCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
** * * * * * * * *
53189013 TTGCTGCATCTTCAGGCAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGTAACTTCAGGGAGA
66 TCACTGCAACTTCAGGAAGCC-AGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAAA
53189078 C
130 C
* * *
53189079 GAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTACT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * * * **
53189144 TTACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTATAA-TCTCAGGGAA
66 TCACTGCAACTTCAGGAAGCC-AGATTCACCGTCTTCGATCTGCCTCACTGCAACT-TCAGGGAA
53189208 AC
129 AC
* * *
53189210 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA--TGCTTAAATCTGCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * * * * * * * *
53189273 TCGCTGCATCTTCAGGAAGCTAAGATTTATCATCTTTGATTTGCCTCACTGCAACTTCAGGGAAG
66 TCACTGCAACTTCAGGAAGC-CAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAAA
53189338 C
130 C
* * *
53189339 GAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGTTAGGACTTGCTTAAATCTGCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * *
53189404 TCACTGCAACATCAGGAAGCCTAGATTCACTGTCTTCGATCTGCCCCACTGCAA-TCTCAGGGAA
66 TCACTGCAACTTCAGGAAGCC-AGATTCACCGTCTTCGATCTGCCTCACTGCAACT-TCAGGGAA
53189468 AC
129 AC
* *
53189470 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAG-GAAGCTAGGA-TGGTGGCTTAAATC
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAG-AGCTAGGACT--T-GCTTAAATC
* * ** *
53189533 TGCTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCGATTTGTTTCACTGCAACTTTAGG
62 TGCTTCACTGCAACTTCAGGAAGC-CAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGG
53189598 GAAAC
126 GAAAC
* * * * * *
53189603 AAGATCT-GAATTTTTAGCCTACTCCATTACAACTTTAGGGAGCTAGG-TTGGTGGCTTAAATCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--T-GCTTAAATCT
* * * *
53189666 GCTTCACTGCAACTTCAGAAAGCTCAGATTCACTGTCTTCGATCTGCTTCACTACAACTTCAGGG
63 GCTTCACTGCAACTTCAGGAAGC-CAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGG
53189731 AAAC
127 AAAC
* * * * * *
53189735 GAGATCTGA-AAT-TTTAACCTACTCCACTACAACTTTCGGGAGCTAGG-TTGGTGGCTTAAATC
1 AAGATCT-ACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--T-GCTTAAATC
* * * ** *
53189797 TACTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCGATCTGCTTCACTTTAATTTCAGG
62 TGCTTCACTGCAACTTCAGGAAGC-CAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGG
53189862 GAAAC
126 GAAAC
53189867 AAGATCTA
1 AAGATCTA
53189875 AAATTTTAGC
Statistics
Matches: 683, Mismatches: 96, Indels: 34
0.84 0.12 0.04
Matches are distributed among these distances:
129 104 0.15
130 5 0.01
131 261 0.38
132 233 0.34
133 78 0.11
134 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (130 bp):
AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
TCACTGCAACTTCAGGAAGCCAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAAAC
Found at i:53189462 original size:260 final size:262
Alignment explanation
Indices: 53188948--53189827 Score: 1085
Period size: 260 Copynumber: 3.4 Consensus size: 262
53188938 TCGAGAAGAT
* * * * * ** * * * *
53188948 AAGACCTACAATCCTCAGCCCACTTCACTACAAATTTAGAGAGCTAGGACTTGCTTAAATATGCT
1 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGAGTGGCTTAAATCTGCT
** * * * *
53189013 TTGCTGCATCTTCAGGCAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGTAACTTCAGGG-AG
66 TCACTGCAACTTCAGGAAGCTAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAG
*
53189077 ACGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTA
131 -CGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTG
* * * *
53189142 CTTTACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTATAATCTCAGGGA
195 CTTCACTGCAACATCAGGAAGCCTAGATTCACTGTCTTCGATCTGCCCCACTACAATCTCAGGGA
53189207 AAC
260 AAC
53189210 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA-T-GCTTAAATCTGCT
1 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGAGTGGCTTAAATCTGCT
* * *
53189273 TCGCTGCATCTTCAGGAAGCTAAGATTTATCATCTTTGATTTGCCTCACTGCAACTTCAGGGAAG
66 TCACTGCAACTTCAGGAAGCTAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAG
*
53189338 CGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGTTAGGACTTGCTTAAATCTGC
131 CGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGC
*
53189403 TTCACTGCAACATCAGGAAGCCTAGATTCACTGTCTTCGATCTGCCCCACTGCAATCTCAGGGAA
196 TTCACTGCAACATCAGGAAGCCTAGATTCACTGTCTTCGATCTGCCCCACTACAATCTCAGGGAA
53189468 AC
261 AC
*
53189470 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGAAGCTAGGATGGTGGCTTAAATCTG
1 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA--GTGGCTTAAATCTG
* *** * ** *
53189535 CTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCGATTTGTTTCACTGCAACTTTAGGGA
64 CTTCACTGCAACTTCAGGAAGCTAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGA
* * * ** * * * *
53189600 AACAAGATCT-GAATTTTTAGCCTACTCCATTACAACTTTAGGGAGCTAGG-TTGGTGGCTTAAA
129 AGCGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--T-GCTTAAA
* * **
53189663 TCTGCTTCACTGCAACTTCAGAAAG-CTCAGATTCACTGTCTTCGATCTGCTTCACTACAA-CTT
191 TCTGCTTCACTGCAACATCAGGAAGCCT-AGATTCACTGTCTTCGATCTGCCCCACTACAATC-T
53189726 CAGGGAAAC
254 CAGGGAAAC
* * * * * *
53189735 GAGATCTGA-AAT-TTTAACCTACTCCACTACAACTTTCGGGAGCTAGGTTGGTGGCTTAAATCT
1 AAGATCT-ATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGG--AGTGGCTTAAATCT
* *
53189798 ACTTCACTGCAACTTCAGGAAGCTCAGATT
63 GCTTCACTGCAACTTCAGGAAGCTAAGATT
53189828 CGCCGTCTTC
Statistics
Matches: 549, Mismatches: 56, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
260 242 0.44
261 3 0.01
262 42 0.08
263 34 0.06
264 149 0.27
265 78 0.14
266 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (262 bp):
AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGAGTGGCTTAAATCTGCT
TCACTGCAACTTCAGGAAGCTAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAG
CGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGC
TTCACTGCAACATCAGGAAGCCTAGATTCACTGTCTTCGATCTGCCCCACTACAATCTCAGGGAA
AC
Found at i:53200968 original size:39 final size:40
Alignment explanation
Indices: 53200868--53201052 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
53200858 TTGAATGATG
* * *
53200868 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
53200907 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
53200948 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
53200987 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
53201026 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53201053 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:53201008 original size:79 final size:81
Alignment explanation
Indices: 53200868--53201052 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
53200858 TTGAATGATG
* * *
53200868 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
53200932 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
53200947 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
53201009 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
53201027 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53201053 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:53201074 original size:79 final size:79
Alignment explanation
Indices: 53200921--53201085 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
53200911 GGACTAAGAT
* * **
53200921 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
53200986 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53201000 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
53201063 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53201079 CCGAAGG
1 CCGAAGG
53201086 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53206183 original size:58 final size:58
Alignment explanation
Indices: 53206108--53206219 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
53206098 AAATTCACAT
* * *
53206108 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGACCCCTTTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATG-CCCCGTTAGGCCCAAATC
* * * *
53206166 ACCTGTATATGGGCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCGTTAGGCCCA
53206220 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 33 0.72
59 13 0.28
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCGTTAGGCCCAAATC
Found at i:53206185 original size:29 final size:29
Alignment explanation
Indices: 53206111--53206219 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
53206101 TTCACATACC
* * *
53206111 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
53206139 T-TCATATGACCCCTTTAGGCCCAAATCACC
1 TGT-ATATG-GCCCATTAGGCCCAAATCACA
*
53206169 TGTATATGGGCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
53206198 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
53206220 GTCACATTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 5 0.08
29 46 0.72
30 11 0.17
31 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:53217203 original size:37 final size:37
Alignment explanation
Indices: 53217147--53217225 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53217137 CCGAGCTCTA
* * *
53217147 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53217184 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53217221 AAGAC
1 AAGAC
53217226 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53218055 original size:47 final size:46
Alignment explanation
Indices: 53217985--53218167 Score: 158
Period size: 47 Copynumber: 3.9 Consensus size: 46
53217975 GGGGTGTTAC
*
53217985 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGATGATGTT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTCGATGATGTT
* *
53218032 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GGT-TATG-T-TT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCGATGATGTT
* * * * * **
53218074 CATGCTAGTGTAAGACATGTTTGGGACATGCATCAGCACGTATACACGAG
1 -A-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCG-AT-GATGTT
* *
53218124 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTCGATG
53218168 GAGATAGCTA
Statistics
Matches: 109, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 32 0.29
45 2 0.02
46 1 0.01
47 33 0.30
48 12 0.11
49 14 0.13
50 8 0.07
51 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCGATGATGTT
Found at i:53218099 original size:44 final size:47
Alignment explanation
Indices: 53217985--53218110 Score: 163
Period size: 44 Copynumber: 2.7 Consensus size: 47
53217975 GGGGTGTTAC
53217985 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGATGATGTT
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGATGATGTT
* * *
53218032 AGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GT-TATG-T-TT
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGATGATGTT
*
53218074 CATGCTAGTGTAAGACATGTTTGGGACATGCATCAGC
1 -A-GCCAGTGTAAGACATGTTTGGGACATGCATCAGC
53218111 ACGTATACAC
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 32 0.46
45 2 0.03
46 1 0.01
47 31 0.44
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGATGATGTT
Found at i:53218177 original size:49 final size:48
Alignment explanation
Indices: 53217989--53218201 Score: 172
Period size: 49 Copynumber: 4.5 Consensus size: 48
53217979 TGTTACAGCC
* * * * *
53217989 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAT-GATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGGACGATAGCT
* **
53218036 AGTGTAAGACATGTCTGGGACATGCATCGG--T-TATGTTTC-AT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATG-GACGATAGCT
* * * ** *
53218080 AGTGTAAGACATGTTTGGGACATGCATCAG-CACGTATACACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCG-ATGGACGATAGCT
53218128 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGA-GATAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGGACGATAGCT
** *
53218177 AGCATAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
53218202 GCAGCGGCAA
Statistics
Matches: 131, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
44 32 0.24
45 2 0.02
46 1 0.01
47 31 0.24
48 13 0.10
49 40 0.31
50 9 0.07
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGGACGATAGCT
Found at i:53226600 original size:55 final size:54
Alignment explanation
Indices: 53226485--53226603 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 54
53226475 CTTAAACTTT
* *
53226485 TAAA-TCAGTATTGTCCACGGTTAGGCCACACAAGCATGTGCCATAGCCATGTC
1 TAAAGTCAGTATTGTCCACGGGTAGGCCACACAAGCATGTGCCATAGCCATGCC
* ** * * *
53226538 TATAAGTCAGTATT-TCCCACGGGTAGGCCACACGAGTGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGT-CCACGGGTAGGCCACACAAGCATGTGCCATAGCCATG-CC
53226594 TAAAGTCAGT
1 TAAAGTCAGT
53226604 GTCCCACACG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
53 2 0.04
54 3 0.06
55 46 0.85
56 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (54 bp):
TAAAGTCAGTATTGTCCACGGGTAGGCCACACAAGCATGTGCCATAGCCATGCC
Found at i:53227226 original size:48 final size:47
Alignment explanation
Indices: 53227110--53227334 Score: 149
Period size: 48 Copynumber: 4.8 Consensus size: 47
53227100 TTGTAAGATT
* * * **
53227110 CCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAAAT-A-G
1 CCAATGCCATATCCCAAATATGGTCTTACACGGGATCATAGTTGATG
* ** **
53227155 --AA-GCCAATAGCCCAGCTATGGTCTTACACGATGTTTCATA-TTGATG
1 CCAATGCC-ATATCCCAAATATGGTCTTACACG--GGATCATAGTTGATG
* *
53227201 CCAATGCCATATCCCAAATATGGTCTTATATGGGATCATATGTTGATG
1 CCAATGCCATATCCCAAATATGGTCTTACACGGGATCATA-GTTGATG
* * * **
53227249 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATA-ACGATG
1 CCAATGCCATATCCCAAATATGGTCTTACACGGGA--TCATAGTTGATG
* * * * *
53227297 CCAATGTCATGTCCCAGACATGGTCTTACATGGGATCA
1 CCAATGCCATATCCCAAATATGGTCTTACACGGGATCA
53227335 CACATAGCCC
Statistics
Matches: 147, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.02
43 23 0.16
44 1 0.01
45 6 0.04
46 10 0.07
48 96 0.65
49 3 0.02
50 5 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (47 bp):
CCAATGCCATATCCCAAATATGGTCTTACACGGGATCATAGTTGATG
Found at i:53231394 original size:34 final size:33
Alignment explanation
Indices: 53231322--53231394 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
53231312 GTGTGCATCT
* * * *
53231322 CTGATACTGTACTGAATTGGGCTAGGGCCTATA
1 CTGATACTGTACTGAAATGGGCTAAGGCCCACA
*
53231355 TTGATACTGTTACT-ATAATGGGCTAAGGCCCACA
1 CTGATACTG-TACTGA-AATGGGCTAAGGCCCACA
53231389 CTGATA
1 CTGATA
53231395 TTGCCATTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (33 bp):
CTGATACTGTACTGAAATGGGCTAAGGCCCACA
Found at i:53239610 original size:20 final size:20
Alignment explanation
Indices: 53239554--53239610 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
53239544 ACATGGTTGA
*
53239554 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
53239574 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
53239594 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
53239611 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:53239769 original size:24 final size:26
Alignment explanation
Indices: 53239661--53239756 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
53239651 GAGGAAGTGC
53239661 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
53239687 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
53239713 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
53239737 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
53239757 GTTAAAAGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 20 0.29
25 12 0.18
26 36 0.53
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:53242301 original size:34 final size:34
Alignment explanation
Indices: 53242233--53242303 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
53242223 ACTGAATTGA
* **
53242233 GCTAGGGCCCACACTGATACTGTTACTGTAATGG
1 GCTAAGGCCCACACTGATACTGCCACTGTAATGG
*
53242267 GCTAAGGCCCACACTGATATTGCCACTG-ATATGG
1 GCTAAGGCCCACACTGATACTGCCACTGTA-ATGG
53242301 GCT
1 GCT
53242304 TAAGCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
GCTAAGGCCCACACTGATACTGCCACTGTAATGG
Found at i:53244409 original size:10 final size:10
Alignment explanation
Indices: 53244394--53244418 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
53244384 GGGGAAGAAG
53244394 ATGATATAAA
1 ATGATATAAA
53244404 ATGATATAAA
1 ATGATATAAA
53244414 ATGAT
1 ATGAT
53244419 TTTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (10 bp):
ATGATATAAA
Found at i:53249981 original size:46 final size:46
Alignment explanation
Indices: 53249931--53250103 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
53249921 TGGTTGAGCA
*
53249931 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
53249977 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
53250024 TCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
53250070 -CCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53250104 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 56 0.55
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53250087 original size:93 final size:93
Alignment explanation
Indices: 53249928--53250098 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
53249918 GGATGGTTGA
* *
53249928 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
53249993 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
53250021 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
53250085 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
53250099 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53257664 original size:47 final size:46
Alignment explanation
Indices: 53257515--53257687 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 46
53257505 AGTTGAGCAT
* *
53257515 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-ATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAATGGATGC-AACGC
* * * * * *
53257561 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-ATGGATGCAACGC
* *
53257606 ATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTAATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAATGGATGC-AACGC
*
53257655 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53257688 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 29 0.28
47 65 0.63
48 3 0.03
49 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAATGGATGCAACGC
Found at i:53257679 original size:94 final size:93
Alignment explanation
Indices: 53257511--53257682 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 93
53257501 GGATAGTTGA
* *
53257511 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53257576 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
53257604 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTAATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-ATGGATGCAAACGCCCGAACTCGTTGAG
53257669 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
53257683 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 34 0.47
94 38 0.53
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53257948 original size:19 final size:20
Alignment explanation
Indices: 53257911--53257948 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53257901 ATAAGGTGGT
53257911 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53257931 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53257949 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53265885 original size:7 final size:7
Alignment explanation
Indices: 53265873--53265905 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
53265863 TTTAGAAATA
53265873 ATTATTT
1 ATTATTT
53265880 ATTATTT
1 ATTATTT
53265887 ATTATTT
1 ATTATTT
*
53265894 -TTACTT
1 ATTATTT
53265900 ATTATT
1 ATTATT
53265906 GAAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:53268329 original size:14 final size:13
Alignment explanation
Indices: 53268308--53268340 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
53268298 AGATATTTAA
53268308 CTTGTTCTTAATT
1 CTTGTTCTTAATT
53268321 CTATGTTCTTAATT
1 CT-TGTTCTTAATT
53268335 CTTGTT
1 CTTGTT
53268341 TTGATATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:53283054 original size:5 final size:5
Alignment explanation
Indices: 53283044--53283082 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
53283034 GTAGATGAAG
*
53283044 AGAAA AGAAA AGAAA AGAAA AG-AA GGAAA AGAAGA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAA
53283083 GAAAGGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 3 0.10
5 22 0.73
6 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:53283076 original size:52 final size:55
Alignment explanation
Indices: 53283015--53283121 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 55
53283005 TCGGCTATGG
53283015 AGGAAAAGAAGAAG-AG-A-AAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGA
1 AGGAAAAGAAGAAGAAGAAGAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGA
**
53283067 AGGAAAAGAAGAAGAAGAAAGGAAGTAGATGAAGAGAGGAGAAAAGAAAAGAAAA
1 AGGAAAAGAAGAAGAAG-AA-GAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAA
53283122 TAGAAGAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
52 14 0.29
53 2 0.04
55 1 0.02
57 31 0.65
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (55 bp):
AGGAAAAGAAGAAGAAGAAGAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGA
Found at i:53283083 original size:15 final size:14
Alignment explanation
Indices: 53283017--53283129 Score: 76
Period size: 14 Copynumber: 8.2 Consensus size: 14
53283007 GGCTATGGAG
53283017 GAAAAGAAGAAG-A
1 GAAAAGAAGAAGAA
* *
53283030 G-AAAGTAGATGAA
1 GAAAAGAAGAAGAA
*
53283043 GAGAA-AAGAA-AA
1 GAAAAGAAGAAGAA
53283055 GAAAAGAA-AAGAA
1 GAAAAGAAGAAGAA
53283068 GGAAAAGAAGAAGAA
1 -GAAAAGAAGAAGAA
* * *
53283083 GAAAGGAAGTAGAT
1 GAAAAGAAGAAGAA
*
53283097 GAAGAGAGGAGAA-AA
1 GAA-A-AGAAGAAGAA
*
53283112 GAAAAGAAAATAGAA
1 GAAAAGAAGA-AGAA
53283127 GAA
1 GAA
53283130 GAAAAAACTG
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
12 16 0.21
13 14 0.19
14 26 0.35
15 15 0.20
16 4 0.05
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.04
Consensus pattern (14 bp):
GAAAAGAAGAAGAA
Found at i:53283100 original size:20 final size:19
Alignment explanation
Indices: 53283036--53283101 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
53283026 AAGAGAAAGT
*
53283036 AGATGAAG-AGAAAAGAAA
1 AGATGAAGAAGAAAGGAAA
* *
53283054 AGA-AAAGAAAAGAAGGAAA
1 AGATGAAGAAGA-AAGGAAA
* *
53283073 AGAAGAAGAAGAAAGGAAGT
1 AGATGAAGAAGAAAGGAA-A
53283093 AGATGAAGA
1 AGATGAAGA
53283102 GAGGAGAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 15 0.41
20 14 0.38
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (19 bp):
AGATGAAGAAGAAAGGAAA
Found at i:53284093 original size:3 final size:3
Alignment explanation
Indices: 53284085--53284118 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
53284075 TCCTATCTAG
*
53284085 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
53284119 TTTATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:53284248 original size:19 final size:18
Alignment explanation
Indices: 53284211--53284254 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
53284201 ATACATACAG
53284211 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
53284228 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
53284247 TACTAATT
1 TAATAATT
53284255 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:53284861 original size:48 final size:48
Alignment explanation
Indices: 53284764--53284883 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
53284754 TGTGCCTATG
*
53284764 TAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTATGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCAGCGATGACATGTATGCTAGTA
* *
53284812 TAAGACCATGTTTGGGACATGGCATCAGC-ACTGACATG-A-GACCTTGTA
1 TAAGACCATGTCTGGGACATGGCATCAGCGA-TGACATGTATG--CTAGTA
* * *
53284860 TAAGACCATATCAGGGATATGGCA
1 TAAGACCATGTCTGGGACATGGCA
53284884 ACGATATGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 1 0.02
47 2 0.03
48 59 0.95
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCAGCGATGACATGTATGCTAGTA
Found at i:53289032 original size:66 final size:66
Alignment explanation
Indices: 53288926--53289059 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
53288916 TACATTAGGT
53288926 AAGTAGGTTAATGATAGCTTATTACCTATTTGAAATAAGGTAAGTAGGTTACTTGATATGTGTTA
1 AAGTAGGTTAATGATAGCTTATTACCTATTTGAAATAAGGTAAGTAGGTTACTTGATATGTGTTA
53288991 C
66 C
53288992 AAGTAGGTTAATGATAGCTTATTACCTATTTGAAATAAGGTAAGTAGGTTACTTGATATGTGTTA
1 AAGTAGGTTAATGATAGCTTATTACCTATTTGAAATAAGGTAAGTAGGTTACTTGATATGTGTTA
53289057 C
66 C
53289058 AA
1 AA
53289060 ATCTATATGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.37
Consensus pattern (66 bp):
AAGTAGGTTAATGATAGCTTATTACCTATTTGAAATAAGGTAAGTAGGTTACTTGATATGTGTTA
C
Done.