Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 110 of 167
Found at i:36688615 original size:27 final size:27
Alignment explanation
Indices: 36688585--36688762 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36688575 ATATTGAGTC
* * * *
36688585 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36688612 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36688639 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36688667 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36688694 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36688721 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36688748 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36688763 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36688724 original size:82 final size:81
Alignment explanation
Indices: 36688606--36688761 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36688596 TGCTATATAA
* *
36688606 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36688671 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36688688 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36688752 CACTTAGTGC
65 CACTTAGTGC
36688762 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36691850 original size:30 final size:30
Alignment explanation
Indices: 36691816--36691872 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
36691806 TTTTTGGGCA
* *
36691816 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
36691846 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
36691873 AATGTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:36694766 original size:45 final size:45
Alignment explanation
Indices: 36694608--36694775 Score: 143
Period size: 45 Copynumber: 3.7 Consensus size: 45
36694598 TTATGAGAGC
*
36694608 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGA-GTG
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCAGC-TT-ACGA-GATGTG
* * **
36694655 CTAGTGTAACACATGTCTGGGACAT-GCATCAGCTT-CGGGACATAAG
1 C-AGTGTAAGACATGTCTGGGACATGGCATCAGCTTAC--GAGATGTG
*
36694701 CCAGTATAAGACATGT-TGGGACAT-GCATCAG-TTACGAGATGTG
1 -CAGTGTAAGACATGTCTGGGACATGGCATCAGCTTACGAGATGTG
36694744 TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -CAGTGTAAGA-CATGTCTGGGACATGGCATC
36694776 GGCAGTTTAC
Statistics
Matches: 99, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
43 14 0.14
44 7 0.07
45 27 0.27
46 27 0.27
47 16 0.16
48 8 0.08
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCAGCTTACGAGATGTG
Found at i:36703755 original size:27 final size:26
Alignment explanation
Indices: 36703720--36703770 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36703710 AGCGGTTGTA
36703720 AAGTCAATTGACTAAAAAAAATTTACC
1 AAGTCAATTGA-TAAAAAAAATTTACC
* * *
36703747 AAGTTAATTTATATAAAAAATTTA
1 AAGTCAATTGATAAAAAAAATTTA
36703771 AATTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (26 bp):
AAGTCAATTGATAAAAAAAATTTACC
Found at i:36704120 original size:57 final size:57
Alignment explanation
Indices: 36704032--36704146 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
36704022 TTATTCCAAG
*
36704032 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTGACAT
1 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
36704089 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
1 AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
36704146 A
1 A
36704147 CTTTTGGGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (57 bp):
AAGCTTATTTGCCACTAATATATCTTTCCACAAGGTAGAAGGAAAAACATTTAACAT
Found at i:36704225 original size:18 final size:18
Alignment explanation
Indices: 36704198--36704248 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
36704188 TTCGGTTAGA
*
36704198 ATATTATTATGGAATATT
1 ATATTGTTATGGAATATT
36704216 ATATTGTTATAGG-ATATT
1 ATATTGTTAT-GGAATATT
36704234 AT-TTGTTA-GGAATAT
1 ATATTGTTATGGAATAT
36704249 CTAAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.07
16 4 0.13
17 6 0.20
18 16 0.53
19 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (18 bp):
ATATTGTTATGGAATATT
Found at i:36704285 original size:12 final size:12
Alignment explanation
Indices: 36704268--36704305 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
36704258 TTGTATATCT
36704268 TTTAGGCATATA
1 TTTAGGCATATA
36704280 TTTAGGCATATA
1 TTTAGGCATATA
* *
36704292 TTTATGAATATA
1 TTTAGGCATATA
36704304 TT
1 TT
36704306 ATATATCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (12 bp):
TTTAGGCATATA
Found at i:36712320 original size:40 final size:39
Alignment explanation
Indices: 36712287--36712409 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 39
36712277 AGTGTCGTAC
36712287 ATAGCCGAAGCTATCTCAAGTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAA-TCGCACACTAAGTGCCATAT
* * *
36712327 ATAGCCGAAGCTATGTCGAATCGTACACTAACTGCCATAT
1 ATAGCCGAAGCTATCTC-AATCGCACACTAAGTGCCATAT
** *
36712367 ATAGCCGAAGCTATGCTGTATCGCACACTAAGTGCCTTAT
1 ATAGCCGAAGCTAT-CTCAATCGCACACTAAGTGCCATAT
36712407 ATA
1 ATA
36712410 ACCAATTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
40 69 0.96
41 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (39 bp):
ATAGCCGAAGCTATCTCAATCGCACACTAAGTGCCATAT
Found at i:36713909 original size:138 final size:137
Alignment explanation
Indices: 36713696--36713974 Score: 389
Period size: 138 Copynumber: 2.0 Consensus size: 137
36713686 ACATAGATAA
* * *
36713696 AATTAATATATGAATTTGATTAGTACAAATGTTAATTGTATATATTTTACCGAAACTATAAATAT
1 AATTAACATATGAATTTGATTAGTACAAATATAAATTGTATATATTTTACCGAAACTATAAATAT
* * * *
36713761 AAAAAATTATATTAATTAATTTCGGTCAACATATAGAAGATGTGGAAATTAATATTCTTTTAGAA
66 AAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAGAA
36713826 AGAATAT
131 AGAATAT
** *
36713833 AATTAACATATGAATTTGATTCA-TACAAAATATAAATTGTATATATTTTACCGAATTTATTAAT
1 AATTAACATATGAATTTGATT-AGTAC-AAATATAAATTGTATATATTTTACCGAAACTATAAAT
* * * ** *
36713897 ATAAACAGTTATATTAATTACTTTTTGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTGG
64 ATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAG
36713962 AAAGAATAT
129 AAAGAATAT
36713971 AATT
1 AATT
36713975 CATTTTTCTA
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
137 23 0.19
138 101 0.81
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (137 bp):
AATTAACATATGAATTTGATTAGTACAAATATAAATTGTATATATTTTACCGAAACTATAAATAT
AAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAGAA
AGAATAT
Found at i:36716462 original size:92 final size:91
Alignment explanation
Indices: 36716346--36716561 Score: 213
Period size: 92 Copynumber: 2.4 Consensus size: 91
36716336 AATTTGATTC
* ** * * ** *
36716346 CATGTCCTAGACAAATCTTCCACTAACACACA-ACAA-GCTGATGCCATGTCCCAGAGAAGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCACACACACAATGCCAATG-CATGTCCCAGACAAGTCTT
*
36716409 ACATTAGCT-TGTATATCTCGAGGCCGATA
65 ACATTAGCTCT-TATA-AT-GAGGCCGATA
* * * *
36716438 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCAATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCACACA-CACAATGCCAATGCATGTCCCAGACAAGTCTT
* * * *
36716503 ACTTTGGCTCTTATAATGTGGCCGATG
65 ACATTAGCTCTTATAATGAGGCCGATA
36716530 CATGTCCCAGACATGTCTTACACTAGCACACA
1 CATGTCCCAGACATGTCTTACACTAGCACACA
36716562 TATCACTCAA
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
92 63 0.62
93 1 0.01
94 31 0.31
95 6 0.06
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTAGCACACACACAATGCCAATGCATGTCCCAGACAAGTCTTA
CATTAGCTCTTATAATGAGGCCGATA
Found at i:36716465 original size:48 final size:47
Alignment explanation
Indices: 36716385--36716556 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 47
36716375 ACAACAAGCT
* * *
36716385 GATGCCATGTCCCAGAGAAGTCTTACATTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCC
* * * * *
36716434 GATACATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCC
* ** * * *
36716480 AATGCATGTCCCAGACATGTCTTACTTTGGCTCTTATA-AT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCC
36716526 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
36716557 ACACATATCA
Statistics
Matches: 98, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
46 66 0.67
47 3 0.03
48 26 0.27
49 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCC
Found at i:36723041 original size:14 final size:14
Alignment explanation
Indices: 36723019--36723054 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
36723009 GTTTTGTTTC
36723019 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
36723034 ATTATTTTATTTAT
1 ATTATTTTATATAT
36723048 ATTATTT
1 ATTATTT
36723055 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:36723090 original size:23 final size:20
Alignment explanation
Indices: 36723074--36723121 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
36723064 TATATATAAA
36723074 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
36723094 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
36723111 TTTTATTATAT
1 TTTTATTATAT
36723122 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:36723099 original size:20 final size:18
Alignment explanation
Indices: 36723025--36723129 Score: 86
Period size: 18 Copynumber: 5.5 Consensus size: 18
36723015 TTTCATTACT
* *
36723025 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
36723043 TTTATATTATTTGTAACATTATA
1 TTTATA-TATTT-T---ATTATA
* *
36723066 TATATAAATTTTATTATA
1 TTTATATATTTTATTATA
36723084 TGTTATATATTTTTATTATA
1 T-TTATATA-TTTTATTATA
*
36723104 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
36723121 TTTTTATAT
1 TTTATATAT
36723130 GTAAAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.14
18 25 0.36
19 9 0.13
20 11 0.16
21 1 0.01
22 4 0.06
23 10 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:36723122 original size:86 final size:85
Alignment explanation
Indices: 36723024--36723194 Score: 190
Period size: 86 Copynumber: 2.0 Consensus size: 85
36723014 GTTTCATTAC
* * * * * *
36723024 TTTTATATATATTATTT-TATTTATATTATTTGTAACATTATATATATAAATTTTATTATATGTT
1 TTTTATATATATT-TTTATATGTAAAATATTTGTAACATTAT-TAT-T--ATTATA-TATATTTC
36723088 ATA-TAT-TTTTATTATA-TTATTTA
60 ATATTATATTTTATTATATTTATTTA
*
36723111 TTTTAT-TATATTTTTATATGTAAAATATTTGTTACATTATTATTATTATATATATTTCATATTA
1 TTTTATATATATTTTTATATGTAAAATATTTGTAACATTATTATTATTATATATATTTCATATTA
36723175 TATTTTATTATATTTATTTA
66 TATTTTATTATATTTATTTA
36723195 AGTTTTTCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
81 9 0.12
82 8 0.11
83 10 0.14
84 8 0.11
85 6 0.08
86 26 0.36
87 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (85 bp):
TTTTATATATATTTTTATATGTAAAATATTTGTAACATTATTATTATTATATATATTTCATATTA
TATTTTATTATATTTATTTA
Found at i:36723173 original size:22 final size:22
Alignment explanation
Indices: 36723148--36723189 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36723138 TTTGTTACAT
36723148 TATTATTATTATA-TATATTTCA
1 TATTA-TATTATATTATATTTCA
*
36723170 TATTATATTTTATTATATTT
1 TATTATATTATATTATATTT
36723190 ATTTAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATATTATATTATATTTCA
Found at i:36729345 original size:47 final size:47
Alignment explanation
Indices: 36729292--36729655 Score: 602
Period size: 47 Copynumber: 7.7 Consensus size: 47
36729282 TTAGGATTCT
36729292 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36729339 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36729386 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
36729433 ACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
36729480 ACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
36729527 ATGTGCTGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
36729574 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
36729621 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
36729656 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 299 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:36729824 original size:37 final size:37
Alignment explanation
Indices: 36729774--36729926 Score: 243
Period size: 37 Copynumber: 4.1 Consensus size: 37
36729764 CCGAGCTCTA
36729774 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
36729811 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
36729848 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * * * *
36729885 AAGTCCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
36729922 AAGAC
1 AAGAC
36729927 TTCGTAATAA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:36739628 original size:4 final size:4
Alignment explanation
Indices: 36739619--36739648 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
36739609 TTACTACCAA
36739619 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
36739649 CGTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:36744941 original size:25 final size:25
Alignment explanation
Indices: 36744888--36744941 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
36744878 CCCATTTCAA
* *
36744888 TTTTCGATAAACTGGGGCAAAACCT
1 TTTTCGATAAACTAGGGCAAAACCC
* * *
36744913 TTTTCGGTAAACTAGGGCATAGCCC
1 TTTTCGATAAACTAGGGCAAAACCC
36744938 TTTT
1 TTTT
36744942 AGCACTTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
TTTTCGATAAACTAGGGCAAAACCC
Found at i:36745152 original size:27 final size:27
Alignment explanation
Indices: 36745120--36745336 Score: 290
Period size: 27 Copynumber: 8.0 Consensus size: 27
36745110 GGGGCAAAAT
* * * *
36745120 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36745147 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
36745174 GGTATTTCTACCCTACAAGGGTACTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36745201 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36745228 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36745255 GGTAATTCTACCCTACAGTGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36745282 GGTAATTCTACCCCATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36745309 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36745336 G
1 G
36745337 ATATTTTACA
Statistics
Matches: 168, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 168 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:36745448 original size:81 final size:81
Alignment explanation
Indices: 36745326--36745546 Score: 275
Period size: 81 Copynumber: 2.7 Consensus size: 81
36745316 CTACCTTATA
* * * *
36745326 GGGGTATTTCGAT-ATTTTACAAGCCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTA
36745390 GTAATTTTACAAA-CTG
66 GTAATTTTACAAATC-G
*** *
36745406 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTGGGGGTATTTTG
1 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTA
*
36745471 GTAATTTTACTAATCG
66 GTAATTTTACAAATCG
* * ** ** *
36745487 AGAGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTTTAAATCAAGGGTA
1 GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTA
36745547 AAACAATAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 11 0.09
81 108 0.90
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTA
GTAATTTTACAAATCG
Found at i:36745523 original size:27 final size:27
Alignment explanation
Indices: 36745339--36745546 Score: 245
Period size: 27 Copynumber: 7.7 Consensus size: 27
36745329 GTATTTCGAT
*
36745339 ATTTTACAAGCCAAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
36745366 ATTTTACAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
***
36745393 ATTTTACAAACTGGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
36745420 ATTTTACAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
***
36745447 ATTTTACAAACTGGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* * * *
36745474 ATTTTACTAATCGAGAGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
36745501 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
36745528 ATTTTTTAAATCAAGGGTA
1 ATTTTACAAACCAAGGGTA
36745547 AAACAATAAT
Statistics
Matches: 153, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:36745732 original size:27 final size:27
Alignment explanation
Indices: 36745541--36745732 Score: 240
Period size: 27 Copynumber: 7.1 Consensus size: 27
36745531 TTTTAAATCA
*
36745541 AGGGTAAAACAATAATTCTATAAATTG
1 AGGGTAAAACGATAATTCTATAAATTG
* *
36745568 ATGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAACGATAATTCTATAAATTG
* * *
36745595 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAACGATAATTCTATAAATTG
*
36745622 AGGGTAAAACGATAATTCTGTAAATTG
1 AGGGTAAAACGATAATTCTATAAATTG
* * *
36745649 AGGATAAAATGGTAATTCTATAAATTG
1 AGGGTAAAACGATAATTCTATAAATTG
* * * *
36745676 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGATAATTCTATAAATTG
* *
36745703 AGGGTAAAACGATAATTTTACAAATTG
1 AGGGTAAAACGATAATTCTATAAATTG
36745730 AGG
1 AGG
36745733 ACATTTTAGT
Statistics
Matches: 142, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACGATAATTCTATAAATTG
Found at i:36753483 original size:23 final size:23
Alignment explanation
Indices: 36753440--36753483 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
36753430 CACAAAAATA
*
36753440 ATTAAATGTGATATTCTATGTTT
1 ATTAAATGTGAAATTCTATGTTT
*
36753463 ATTATATGTGAAAGTTC-ATGT
1 ATTAAATGTGAAA-TTCTATGT
36753484 GTGAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (23 bp):
ATTAAATGTGAAATTCTATGTTT
Found at i:36756033 original size:38 final size:38
Alignment explanation
Indices: 36755972--36756084 Score: 154
Period size: 38 Copynumber: 2.9 Consensus size: 38
36755962 ATTTGATGTG
*
36755972 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
36756012 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * *
36756050 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
36756085 TTATATTCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 54 0.81
39 5 0.07
40 8 0.12
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:36756085 original size:38 final size:38
Alignment explanation
Indices: 36755988--36756095 Score: 162
Period size: 38 Copynumber: 2.8 Consensus size: 38
36755978 GGCTTAAAGA
** *
36755988 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
36756026 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
36756064 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
36756096 CCTTCGTGCC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:36756212 original size:43 final size:43
Alignment explanation
Indices: 36756088--36756199 Score: 224
Period size: 43 Copynumber: 2.6 Consensus size: 43
36756078 GCTGGTATTA
36756088 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
36756131 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
36756174 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
36756200 GTAATGCCGG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.10, C:0.27, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:36761431 original size:38 final size:38
Alignment explanation
Indices: 36761380--36761466 Score: 165
Period size: 38 Copynumber: 2.3 Consensus size: 38
36761370 ATATTCGATG
36761380 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
*
36761418 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
36761456 TATATCCGGGT
1 TATATCCGGGT
36761467 ATTATATCCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
Found at i:36761469 original size:13 final size:13
Alignment explanation
Indices: 36761451--36761478 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36761441 GCTTCGTGCT
36761451 GGTATTATATCCG
1 GGTATTATATCCG
36761464 GGTATTATATCCG
1 GGTATTATATCCG
36761477 GG
1 GG
36761479 CTTAAAGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (13 bp):
GGTATTATATCCG
Found at i:36761506 original size:53 final size:51
Alignment explanation
Indices: 36761413--36761519 Score: 151
Period size: 53 Copynumber: 2.1 Consensus size: 51
36761403 GCTTCGTGCT
* **
36761413 GGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
1 GGTATTATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAAAATATCCG
* *
36761464 GGTATTATATCCGGGCTTAAAGACCTGTAGGCTTCGTGCTGGTAAAATATCCG
1 GGTATTATATCCGGG-TTAAA-ACCCGCAGGCTTCGTGCTGGTAAAATATCCG
36761517 GGT
1 GGT
36761520 TAAATGCCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 15 0.31
52 5 0.10
53 29 0.59
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (51 bp):
GGTATTATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAAAATATCCG
Found at i:36761552 original size:38 final size:39
Alignment explanation
Indices: 36761464--36761594 Score: 142
Period size: 38 Copynumber: 3.4 Consensus size: 39
36761454 ATTATATCCG
*
36761464 GGTATTATATCCGGGCTTAAA-GACCTGTAGGCTTCGTGCT
1 GGTATTATATCCGGG-TTAAATG-CCTGCAGGCTTCGTGCT
**
36761504 GGTAAAATATCCGGGTTAAATGCC-GCAGGCTTCGTGCT
1 GGTATTATATCCGGGTTAAATGCCTGCAGGCTTCGTGCT
* * * * *
36761542 GGTATTATATCCAGGATAAAT-CCTGCAAGCCTAGTGCT
1 GGTATTATATCCGGGTTAAATGCCTGCAGGCTTCGTGCT
*
36761580 GGTATTATATTCGGG
1 GGTATTATATCCGGG
36761595 CCTTCGTGCC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
37 2 0.03
38 54 0.70
39 7 0.09
40 14 0.18
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (39 bp):
GGTATTATATCCGGGTTAAATGCCTGCAGGCTTCGTGCT
Found at i:36761664 original size:43 final size:43
Alignment explanation
Indices: 36761587--36761668 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
36761577 GCTGGTATTA
* * **
36761587 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGATGTG
36761630 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGA
36761669 AATGATGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAGGCGTAATGCCGGTGATGTG
Found at i:36767268 original size:8 final size:8
Alignment explanation
Indices: 36767255--36767280 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36767245 CTAGTTAGAA
36767255 AATAAAAT
1 AATAAAAT
36767263 AATAAAAT
1 AATAAAAT
36767271 AATAAAAT
1 AATAAAAT
36767279 AA
1 AA
36767281 AATATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:36832028 original size:19 final size:20
Alignment explanation
Indices: 36831991--36832028 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36831981 ATAAGGTGGT
36831991 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36832011 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36832029 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:36834072 original size:40 final size:40
Alignment explanation
Indices: 36833971--36834161 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
36833961 TGGATGATAA
* * * * * **
36833971 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAAT
*
36834011 CCTGGC-AAGTCCCGAAGGCATTTGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAAT
* * * *
36834050 CCGGGCTAAGTCACGATGGCATTTTTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAAT
* * *
36834090 CCGAGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTCT-AA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-T-TAAAT
* *
36834130 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
36834162 AGCTATATCC
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 31 0.25
40 90 0.73
41 2 0.02
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAAT
Found at i:36834160 original size:80 final size:77
Alignment explanation
Indices: 36833968--36834161 Score: 210
Period size: 80 Copynumber: 2.5 Consensus size: 77
36833958 ATTTGGATGA
* * * ** *
36833968 TAACCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTCCTGGCAAGTCCCGAAGGCATT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAAATCCTGGCAAGTCCCGAAGGCAAT
36834033 TGTGCGAGTTAT
66 TGTGCGAGTTAT
* * ** * *
36834045 TAAATCCGGGCTAAGTCACGATGGCATTTTTGCGAGTTACTAAATCC-GAGCTAAGTCTCGAAGG
1 T-AA-CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAAATCCTG-GC-AAGTCCCGAAGG
36834109 CAATTGTGCGAGTTACT
62 CAATTGTGCGAGTTA-T
*
36834126 CTAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
36834162 AGCTATATCC
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 3 0.03
79 35 0.37
80 52 0.55
81 3 0.03
82 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (77 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAAATCCTGGCAAGTCCCGAAGGCAAT
TGTGCGAGTTAT
Found at i:36841054 original size:27 final size:27
Alignment explanation
Indices: 36841024--36841201 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36841014 ATATTGAGTC
* * * *
36841024 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36841051 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36841078 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36841106 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36841133 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36841160 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36841187 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36841202 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36841163 original size:82 final size:81
Alignment explanation
Indices: 36841045--36841200 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36841035 TGCTATATAA
* *
36841045 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36841110 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36841127 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36841191 CACTTAGTGC
65 CACTTAGTGC
36841201 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36845417 original size:40 final size:40
Alignment explanation
Indices: 36845316--36845506 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
36845306 TGGATGATAA
* * * * **
36845316 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
36845356 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
36845395 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
36845435 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
36845475 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
36845507 AGCTATATCC
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 32 0.24
40 102 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:36853875 original size:46 final size:46
Alignment explanation
Indices: 36853825--36853997 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
36853815 TGGTTGAGCA
36853825 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
36853871 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * * *
36853916 CATCTGAACTCGTTGAGTTGATTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
36853964 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36853998 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.56
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:36853981 original size:93 final size:93
Alignment explanation
Indices: 36853822--36853992 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
36853812 GGATGGTTGA
*
36853822 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
36853887 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
36853915 GCATCTGAACTCGTTGAGTTGATTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
36853980 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36853993 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36854259 original size:19 final size:20
Alignment explanation
Indices: 36854222--36854259 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36854212 ATAAGGTGGT
36854222 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36854242 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36854260 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:36856854 original size:60 final size:60
Alignment explanation
Indices: 36856781--36857017 Score: 474
Period size: 60 Copynumber: 4.0 Consensus size: 60
36856771 AGAAGCAAAA
36856781 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
1 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
36856841 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
1 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
36856901 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
1 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
36856961 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATAC
1 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATAC
36857018 AAAAATTCCT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 177 1.00
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.48
Consensus pattern (60 bp):
ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
Found at i:36856858 original size:30 final size:30
Alignment explanation
Indices: 36856824--36856979 Score: 80
Period size: 30 Copynumber: 5.2 Consensus size: 30
36856814 TTGAACATAC
36856824 TCTTATACATATACCTTATAGTATTTTTAT
1 TCTTATACATATACCTTATAGTATTTTTAT
* ** *
36856854 TCTTATTA-ATAATA--TT-CAGT-TTGAACATAC
1 TCTTA-TACAT-ATACCTTATAGTATT---TTTAT
36856884 TCTTATACATATACCTTATAGTATTTTTAT
1 TCTTATACATATACCTTATAGTATTTTTAT
* ** *
36856914 TCTTATTA-ATAATA--TT-CAGT-TTGAACATAC
1 TCTTA-TACAT-ATACCTTATAGTATT---TTTAT
36856944 TCTTATACATATACCTTATAGTATTTTTAT
1 TCTTATACATATACCTTATAGTATTTTTAT
36856974 TCTTAT
1 TCTTAT
36856980 TAATAATATT
Statistics
Matches: 90, Mismatches: 16, Indels: 40
0.62 0.11 0.27
Matches are distributed among these distances:
27 4 0.04
28 6 0.07
29 14 0.16
30 42 0.47
31 14 0.16
32 6 0.07
33 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.50
Consensus pattern (30 bp):
TCTTATACATATACCTTATAGTATTTTTAT
Found at i:36858709 original size:20 final size:20
Alignment explanation
Indices: 36858684--36858725 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
36858674 AAATAAACAC
**
36858684 ATAACTATTCATTTAATATT
1 ATAACTATTCAAATAATATT
36858704 ATAACTATTCAAATAATATT
1 ATAACTATTCAAATAATATT
36858724 AT
1 AT
36858726 TTAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAAATAATATT
Found at i:36867674 original size:17 final size:17
Alignment explanation
Indices: 36867652--36867689 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36867642 TATTTTGTTT
*
36867652 AACTTGTCTTACAAGTA
1 AACTTGACTTACAAGTA
*
36867669 AACTTGACTTGCAAGTA
1 AACTTGACTTACAAGTA
36867686 AACT
1 AACT
36867690 CTTTAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (17 bp):
AACTTGACTTACAAGTA
Found at i:36871269 original size:67 final size:67
Alignment explanation
Indices: 36871159--36871328 Score: 241
Period size: 67 Copynumber: 2.5 Consensus size: 67
36871149 GCGTTTTGGT
* * * *
36871159 AGCCTTGCTGCAATCTGGTGGCCTCGCCACATATGTTTGTTCTGGTGACTTCGTCACAATATCTG
1 AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTG
36871224 GC
66 GC
*
36871226 AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTTGTCACAATATCTG
1 AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTG
*
36871291 GT
66 GC
* * * * *
36871293 AGCCTCGTTGTAATCTGGTGGCTTCACTACATATAT
1 AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
36871329 ATATCTGTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 92 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (67 bp):
AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTG
GC
Found at i:36871360 original size:71 final size:67
Alignment explanation
Indices: 36871159--36871361 Score: 199
Period size: 67 Copynumber: 3.0 Consensus size: 67
36871149 GCGTTTTGGT
* * * * * * * *
36871159 AGCCTTGCTGCAATCTGGTGGCCTCGCCACATATGTTTGTTCTGGTGACTTCGTCACAATATCTG
1 AGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACCTAGCCACAATATCTG
36871224 GC
66 GC
* * * *
36871226 AGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTTGTCACAATATCTG
1 AGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACCTAGCCACAATATCTG
*
36871291 GT
66 GC
* * * * * *
36871293 AGCCTCGTTGTAATCTGGTGGCTTCACTACATATATATATCTGTTCTGGTGGCCTAGCCACAATA
1 AGCCTCGCTGCAATCTGGTGGCCTCAC--C--ACATATATCTATTCTGGTGACCTAGCCACAATA
36871358 TCTG
62 TCTG
36871362 TATCTGGTGA
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
67 84 0.72
69 1 0.01
71 31 0.27
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (67 bp):
AGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACCTAGCCACAATATCTG
GC
Found at i:36874531 original size:17 final size:17
Alignment explanation
Indices: 36874509--36874546 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36874499 TATTTTATTT
* *
36874509 AACTTGTCTTGCAAGTA
1 AACTTGACTTGCAAATA
36874526 AACTTGACTTGCAAATA
1 AACTTGACTTGCAAATA
36874543 AACT
1 AACT
36874547 CTTCAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (17 bp):
AACTTGACTTGCAAATA
Found at i:36883102 original size:22 final size:22
Alignment explanation
Indices: 36883056--36883102 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
36883046 TTAACTAAGG
* *
36883056 TGAAATTATATACATGTATGCA
1 TGAAATGATATACATGTATGAA
36883078 TGAAATGATATACTATG-ATGAA
1 TGAAATGATATAC-ATGTATGAA
36883100 TGA
1 TGA
36883103 TGGAATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (22 bp):
TGAAATGATATACATGTATGAA
Found at i:36891754 original size:39 final size:39
Alignment explanation
Indices: 36891700--36891831 Score: 165
Period size: 39 Copynumber: 3.4 Consensus size: 39
36891690 TACATGAGAT
*
36891700 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATTC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * *
36891739 TGGAAAAATATCCGGACATGAGATCCGCAGGTTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * * ** *
36891778 TAGAAATATATCCGGACTTGAGGTCTGCAGGCGACGTGT
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
36891817 TGGAAATATATCCGG
1 TGGAAATATATCCGG
36891832 GTTAAAGACC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:36891845 original size:78 final size:77
Alignment explanation
Indices: 36891702--36891861 Score: 180
Period size: 78 Copynumber: 2.1 Consensus size: 77
36891692 CATGAGATTG
* * * *
36891702 GAAATATATCCGGACATGAGGTCCGCAGGCTATATTCTGGAAAAATATCCGGACATGAGATCCGC
1 GAAATATATCCGGACATGAGGTCCGCAGGCGACATTCTGGAAAAATATCCGGACATAAGACCCGC
*
36891767 AGGTTATATGCTA
66 AGGCT-TATGCTA
* * * * **
36891780 GAAATATATCCGGACTTGAGGTCTGCAGGCGACGTGT-TGGAAATATATCCGG-GTTAAAGACCC
1 GAAATATATCCGGACATGAGGTCCGCAGGCGACAT-TCTGGAAAAATATCCGGACAT-AAGACCC
36891843 GCAGGCTTATGCTA
64 GCAGGCTTATGCTA
36891857 GAAAT
1 GAAAT
36891862 GTATTCCGAG
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 13 0.19
78 55 0.80
79 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (77 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCGACATTCTGGAAAAATATCCGGACATAAGACCCGC
AGGCTTATGCTA
Found at i:36901047 original size:40 final size:40
Alignment explanation
Indices: 36900965--36901184 Score: 218
Period size: 40 Copynumber: 5.5 Consensus size: 40
36900955 TATTCGAATG
* * * *
36900965 ATATCCGGGCTAAG-TCCCGAGGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTGACT
*
36901005 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAG-TGACT
* * *
36901045 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
* * *
36901085 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTGACT
* * * **
36901125 ATATCCGGGCTAAGACCCGAAGAC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
36901164 ATATCC-GGCTAA-ATTCCGAAG
1 ATATCCGGGCTAAGA-TCCGAAG
36901185 ATGCTTGGGT
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 16 0.11
40 120 0.79
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
Found at i:36901098 original size:80 final size:80
Alignment explanation
Indices: 36900965--36901146 Score: 251
Period size: 80 Copynumber: 2.3 Consensus size: 80
36900955 TATTCGAATG
* * * *
36900965 ATATCCGGGCTAAGTCCCGAGGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
36901029 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
36901045 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
36901110 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
36901125 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
36901147 ACCTTGTGCG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 88 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:36901453 original size:22 final size:22
Alignment explanation
Indices: 36901411--36901454 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36901401 AAAATGTGCA
* *
36901411 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
36901433 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
36901455 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:36906746 original size:40 final size:39
Alignment explanation
Indices: 36906664--36906883 Score: 191
Period size: 40 Copynumber: 5.5 Consensus size: 39
36906654 TATTCGAATG
* * * *
36906664 ATATCCGGGCTAAG-TCCCGAGGGCTTTTATGCTAGTGACT
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGTGACT
36906704 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCGAG-TGACT
* * *
36906744 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
* * *
36906784 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGTGACT
* * *
36906824 ATATCCAGGCTAAGACCCGAAGGC-CTTGTACGAGTG-CTT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCGAGTGAC-T
36906863 ATATCCGGCTAA-ATTCCGAAG
1 ATATCCGGCTAAGA-TCCGAAG
36906884 ATTCTTGGGT
Statistics
Matches: 152, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 17 0.11
40 116 0.76
41 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
Found at i:36906797 original size:80 final size:80
Alignment explanation
Indices: 36906664--36906847 Score: 246
Period size: 80 Copynumber: 2.3 Consensus size: 80
36906654 TATTCGAATG
* * * *
36906664 ATATCCGGGCTAAGTCCCGAGGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
36906728 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
36906744 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
36906809 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
*
36906824 ATATCCAGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
36906848 CTTGTACGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 89 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:36907152 original size:22 final size:22
Alignment explanation
Indices: 36907110--36907153 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36907100 AAAATGTGCA
* *
36907110 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
36907132 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
36907154 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:36917966 original size:39 final size:39
Alignment explanation
Indices: 36917922--36918050 Score: 177
Period size: 39 Copynumber: 3.3 Consensus size: 39
36917912 TATATGAGAT
*
36917922 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
*
36917961 TGGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * * * **
36918000 TAGAAATATATCCAGACTTGAGGTCCGTAGGCTACGTGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
36918039 TGGAAAAATATC
1 TGGAAAAATATC
36918051 TGGGTTAAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (39 bp):
TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:36918067 original size:78 final size:77
Alignment explanation
Indices: 36917924--36918083 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 77
36917914 TATGAGATTG
* * * *
36917924 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGC
1 GAAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
36917989 AGGCTATATGCTA
66 AGGCT-TATGCTA
* * * * **
36918002 GAAATATATCCAGACTTGAGGTCCGTAGGCTACGTGCTGGAAAAATATCTGG-GTTAAAGACCCG
1 GAAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
*
36918066 CATGCTTATGCTA
65 CAGGCTTATGCTA
36918079 GAAAT
1 GAAAT
36918084 GTATTCCGAG
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 13 0.19
78 57 0.81
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (77 bp):
GAAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
AGGCTTATGCTA
Found at i:36923638 original size:21 final size:20
Alignment explanation
Indices: 36923551--36923638 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 20
36923541 TATGTCTTTC
36923551 AAAATAAAATAATAAAATTGAAATG
1 AAAAT-AAA-AATAAAA-T-AAA-G
* *
36923576 AAAATAAAAATCAAA-AGAG
1 AAAATAAAAATAAAATAAAG
*
36923595 -AAATAAAAATAAAATAACG
1 AAAATAAAAATAAAATAAAG
* *
36923614 AAAATAAAAATTAGAATAAAT
1 AAAATAAAAA-TAAAATAAAG
36923635 AAAA
1 AAAA
36923639 AAATAGGAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
18 13 0.25
19 3 0.06
20 11 0.21
21 11 0.21
23 6 0.12
24 3 0.06
25 5 0.10
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAAATAAAAATAAAATAAAG
Found at i:36925607 original size:16 final size:16
Alignment explanation
Indices: 36925586--36925616 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36925576 CGGGCGTGTC
36925586 GTTTTCATTCTCGTGG
1 GTTTTCATTCTCGTGG
36925602 GTTTTCATTCTCGTG
1 GTTTTCATTCTCGTG
36925617 CCCGTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.23, T:0.52
Consensus pattern (16 bp):
GTTTTCATTCTCGTGG
Found at i:36928858 original size:30 final size:30
Alignment explanation
Indices: 36928822--36928882 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36928812 TCCTTAACTC
36928822 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36928852 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36928882 A
1 A
36928883 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36941477 original size:29 final size:29
Alignment explanation
Indices: 36941409--36941510 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
36941399 ACCCCTAAAT
* *
36941409 ACATGCATATGGGCCAT-TGGCCCAATT-
1 ACATTCATATGGCCCATCTGGCCCAATTC
*
36941436 TCATTCACT-TGGCCCATCTGGCCCAATTC
1 ACATTCA-TATGGCCCATCTGGCCCAATTC
* * *
36941465 GCATTCATATGGCTCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
*
36941494 ATATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
36941511 TAGGCCCCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
27 12 0.19
28 12 0.19
29 38 0.61
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTGGCCCAATTC
Found at i:36943029 original size:16 final size:16
Alignment explanation
Indices: 36943005--36943036 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36942995 GAATTCAAGA
36943005 TTTTAGGATTTTTGGG
1 TTTTAGGATTTTTGGG
*
36943021 TTTTTGGATTTTTGGG
1 TTTTAGGATTTTTGGG
36943037 GCATTACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.31, T:0.59
Consensus pattern (16 bp):
TTTTAGGATTTTTGGG
Found at i:36943223 original size:43 final size:44
Alignment explanation
Indices: 36943120--36943227 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
36943110 ATGATTCGTT
* * *
36943120 TAAGACCACGTTTGGGACGTTGGCATCGATTTGTGATTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTACATG
*
36943164 TAAGACC-CTTTCTGGGACAG-TGGCATCGATATGTGA-TTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTTACATG
36943207 TAAGACCACGTCTGGGACGTT
1 TAAGACCACGTCTGGGACGTT
36943228 AGAATTTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.02
43 23 0.42
44 30 0.55
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTACATG
Found at i:36945565 original size:14 final size:14
Alignment explanation
Indices: 36945548--36945578 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36945538 AAAACTCAGA
36945548 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
*
36945562 AAAAGAAACAAAAG
1 AAAAGAAAAAAAAG
36945576 AAA
1 AAA
36945579 GGGGAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:36946996 original size:43 final size:43
Alignment explanation
Indices: 36946592--36947003 Score: 389
Period size: 43 Copynumber: 9.5 Consensus size: 43
36946582 TATGCTTCGT
* * **
36946592 TATATCCGATGATGCACTATGTATGCCAGTATAGTTACTTCCG
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
* * *
36946635 TATA-CCAGATGATGATTCACTGTATGTGCCAATATAGGTACTTTGG
1 TATATCC-GATGATG---CACTGTGTGTGCCAGTATAGTTACTTTGG
* * * *
36946681 TATATCCGATGATGAACTGTGTTTGTCTA-TATAGTTACTTCGG
1 TATATCCGATGATGCACTGTGTGTG-CCAGTATAGTTACTTTGG
* * * *
36946724 TATATCCGATGATACACTATGTGTGCTAGTATAGTTACTTCGG
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
* * ** *
36946767 TATATCCGATGATGCACTGTGTGTGCTAGTACAGTGGCTTTGA
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
* * ** *
36946810 TATATCCAATGATGCACTGTGTTTGCCAACATAGTTACTTCGG
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
* * * * * * *
36946853 TATATCCAATAATGCATTGTATGTGCCATTATAGTTGCTTTAG
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
* *
36946896 TATATCTGATGATGCACTGTGTGTGCCAGTATAGTT-TTTTAGG
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTT-GG
* * ** *
36946939 TTTATTCGATGATGCACTGTGTGTGCCAGTATAGTTGTTTTAG
1 TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
*
36946982 TATATCCGATGATGCATTGTGT
1 TATATCCGATGATGCACTGTGT
36947004 ATATCAATAT
Statistics
Matches: 302, Mismatches: 58, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
42 8 0.03
43 253 0.84
44 6 0.02
46 33 0.11
47 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.39
Consensus pattern (43 bp):
TATATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTTGG
Found at i:36947389 original size:11 final size:12
Alignment explanation
Indices: 36947362--36947390 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36947352 AATGATAATA
36947362 AAAATCAAAATT
1 AAAATCAAAATT
36947374 AAAATCAAAA-T
1 AAAATCAAAATT
36947385 AAAATC
1 AAAATC
36947391 CCATTACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATCAAAATT
Found at i:36949034 original size:14 final size:13
Alignment explanation
Indices: 36949015--36949044 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
36949005 TTTAGTTTAA
36949015 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
36949029 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36949042 TTA
1 TTA
36949045 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:36954537 original size:12 final size:12
Alignment explanation
Indices: 36954491--36954537 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
36954481 AATTCTCTTA
36954491 TCTTTTTATTTT
1 TCTTTTTATTTT
**
36954503 GATTTTTATTTT
1 TCTTTTTATTTT
*
36954515 TCTTCTTATTTT
1 TCTTTTTATTTT
*
36954527 TCTTTTCATTT
1 TCTTTTTATTT
36954538 CAATTTTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (12 bp):
TCTTTTTATTTT
Found at i:36959666 original size:28 final size:28
Alignment explanation
Indices: 36959634--36959699 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
36959624 ACAATTTTCA
*
36959634 GTGCCACATGGTCTAGCT-ACACAACTGT
1 GTGCCACATGGGCTAG-TGACACAACTGT
* *
36959662 GTGCCGTACATGGGGTAGTGACACGACTGT
1 GTGCC--ACATGGGCTAGTGACACAACTGT
36959692 GTGCCACA
1 GTGCCACA
36959700 AAATTTTAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
28 8 0.25
29 1 0.03
30 23 0.72
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (28 bp):
GTGCCACATGGGCTAGTGACACAACTGT
Found at i:36959673 original size:30 final size:30
Alignment explanation
Indices: 36959639--36959696 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
36959629 TTTCAGTGCC
*
36959639 ACATGGTCTAGCT-ACACAACTGTGTGCCGT
1 ACATGGGCTAG-TGACACAACTGTGTGCCGT
* *
36959669 ACATGGGGTAGTGACACGACTGTGTGCC
1 ACATGGGCTAGTGACACAACTGTGTGCC
36959697 ACAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (30 bp):
ACATGGGCTAGTGACACAACTGTGTGCCGT
Found at i:36961311 original size:19 final size:19
Alignment explanation
Indices: 36961271--36961312 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
36961261 CACCTCATGT
* *
36961271 GCCAGGATGTGCTTTGTGC
1 GCCAGGATGTGCTTCGTAC
36961290 GCCAGGATGTGCTTCGTAC
1 GCCAGGATGTGCTTCGTAC
36961309 GCCA
1 GCCA
36961313 ATATGCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.33, T:0.26
Consensus pattern (19 bp):
GCCAGGATGTGCTTCGTAC
Found at i:36963881 original size:33 final size:33
Alignment explanation
Indices: 36963844--36963917 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
36963834 CAAATTGCCG
36963844 ATAAGACCATAACCGGGCTATGGCAAT-TGAATA
1 ATAAGACCATAACCGGGCTATGGC-ATGTGAATA
* *
36963877 ATAAGACCATAACCGGGTTATGGCATGTGAATG
1 ATAAGACCATAACCGGGCTATGGCATGTGAATA
36963910 A-AAGACCA
1 ATAAGACCA
36963918 CAGCAAGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 9 0.24
33 29 0.76
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (33 bp):
ATAAGACCATAACCGGGCTATGGCATGTGAATA
Found at i:36974210 original size:28 final size:28
Alignment explanation
Indices: 36974142--36974255 Score: 122
Period size: 28 Copynumber: 4.1 Consensus size: 28
36974132 AGCATGACGG
*
36974142 TAAATGTGATTGGGCCTAAT-GGCCGTA
1 TAAATGTGATTGGGCCTAATGGGCCATA
* *
36974169 TAAATGTGATTTGGGCCTAGTGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGGGCCATA
*
36974198 TAAATGTGATTGGGCCTAATGGACCATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
* ** * * *
36974226 TGAGGGAGATTAGGCCTAGTGGGCCATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
36974254 TA
1 TA
36974256 CAAGTATGTG
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
27 9 0.13
28 48 0.68
29 14 0.20
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCATA
Found at i:36974242 original size:56 final size:56
Alignment explanation
Indices: 36974142--36974251 Score: 150
Period size: 56 Copynumber: 2.0 Consensus size: 56
36974132 AGCATGACGG
* * * *
36974142 TAAATGTGATTGGGCCTAATGGCCGTATAAATGTGATTTGGGCCTAGTGGGCCACA
1 TAAATGTGATTGGGCCTAATGGCCATATAAAGGAGATTTAGGCCTAGTGGGCCACA
* *
36974198 TAAATGTGATTGGGCCTAATGGACCATATGAGGGAGA-TTAGGCCTAGTGGGCCA
1 TAAATGTGATTGGGCCTAATGG-CCATATAAAGGAGATTTAGGCCTAGTGGGCCA
36974252 TATACAAGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 38 0.81
57 9 0.19
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATAAAGGAGATTTAGGCCTAGTGGGCCACA
Found at i:36975250 original size:29 final size:29
Alignment explanation
Indices: 36975208--36975266 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
36975198 TTATAAGAAG
36975208 TGGAACATGGATTTTCTAAGCTATAGTTT
1 TGGAACATGGATTTTCTAAGCTATAGTTT
36975237 TGGAACATGGATTTTCTAAGCTATAGTTT
1 TGGAACATGGATTTTCTAAGCTATAGTTT
36975266 T
1 T
36975267 CTTTTAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (29 bp):
TGGAACATGGATTTTCTAAGCTATAGTTT
Found at i:36975268 original size:15 final size:15
Alignment explanation
Indices: 36975219--36975268 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
36975209 GGAACATGGA
36975219 TTTTCTAAGCTATAG
1 TTTTCTAAGCTATAG
** *
36975234 TTTTGGAA-C-ATGG
1 TTTTCTAAGCTATAG
36975247 ATTTTCTAAGCTATAG
1 -TTTTCTAAGCTATAG
36975263 TTTTCT
1 TTTTCT
36975269 TTTAATACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 13 0.50
16 3 0.12
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (15 bp):
TTTTCTAAGCTATAG
Found at i:36976624 original size:21 final size:20
Alignment explanation
Indices: 36976587--36976626 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
36976577 TATGCATGAG
*
36976587 TTTTGATGATTGATGATAGA
1 TTTTGATAATTGATGATAGA
*
36976607 TTTTGAATAATTGTTGATAG
1 TTTTG-ATAATTGATGATAG
36976627 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (20 bp):
TTTTGATAATTGATGATAGA
Found at i:36976713 original size:29 final size:27
Alignment explanation
Indices: 36976655--36976717 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
36976645 GTGATTTTTG
*
36976655 GTGAAATTGTAAAATAGGGATTAAATT
1 GTGAAATTGTAAAATAGGGATTAAAAT
*
36976682 GTGAAATGTGTAAAGGTAGTGG-TTAAAAT
1 GTGAAAT-TGTAAA-ATAG-GGATTAAAAT
36976711 GTGAAAT
1 GTGAAAT
36976718 AAATGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 6 0.19
29 16 0.52
30 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (27 bp):
GTGAAATTGTAAAATAGGGATTAAAAT
Found at i:36977122 original size:11 final size:11
Alignment explanation
Indices: 36977106--36977136 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
36977096 TGAACGATAG
36977106 TGATTCGACGA
1 TGATTCGACGA
36977117 TGATTCGACGA
1 TGATTCGACGA
36977128 TGATTCGAC
1 TGATTCGAC
36977137 ATTTGAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (11 bp):
TGATTCGACGA
Found at i:36979705 original size:48 final size:46
Alignment explanation
Indices: 36979589--36979708 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
36979579 TGATAAGTGT
* * *
36979589 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAAA
* * * *
36979635 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGA-AGA-AA
* *
36979683 GCTAGTGTAAGACCTATCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
36979709 TGCGTCAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 37 0.60
47 1 0.02
48 24 0.39
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAAA
Found at i:36979789 original size:49 final size:49
Alignment explanation
Indices: 36979592--36979901 Score: 207
Period size: 49 Copynumber: 6.5 Consensus size: 49
36979582 TAAGTGTGCT
* * * * * *
36979592 AGTGTAAGACATGTCTGGGACAT-GCATCGACATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * *
36979638 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * * * *
36979686 AGTGTAAGACCTATCTGGGACATTGCGTC-AGCTTG-TTG-TG-TA-TC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
36979730 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * *
36979779 AGTGTGAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * **
36979828 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTTGAT-G-TGTTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
36979875 AGTGTAAGACCATGT-TAGGGACATGGC
1 AGTGTAAGACC-TGTCT-GGGACATGGC
36979902 GTTGGCATCT
Statistics
Matches: 205, Mismatches: 45, Indels: 26
0.74 0.16 0.09
Matches are distributed among these distances:
44 26 0.13
45 3 0.01
46 35 0.17
47 20 0.10
48 43 0.21
49 78 0.38
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:36979849 original size:142 final size:138
Alignment explanation
Indices: 36979592--36979850 Score: 342
Period size: 142 Copynumber: 1.8 Consensus size: 138
36979582 TAAGTGTGCT
** * *
36979592 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACACCGAGACGAGAGCCAGTGTAAGACATGTCTGGG
* *
36979657 ACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGACATTGCGTCAGCTTGT
66 ACAGGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTAGGACATTGCGTCAGCTTGT
36979722 TGTGTATC
131 TGTGTATC
* * * *
36979730 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTGAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACACCG--AGACGAGAGCCAGTGTAAGACATGTCT
* *
36979795 GGGACACGGCATCGGCCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCTAGGACAT
63 GGGACA-GGCATCGGCCTCGAGATAT-ACAAGCT-AGTGTAAGACCTATCTAGGACAT
36979851 GGCATCGACT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
138 22 0.21
139 10 0.10
141 29 0.28
142 41 0.40
143 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACACCGAGACGAGAGCCAGTGTAAGACATGTCTGGG
ACAGGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTAGGACATTGCGTCAGCTTGT
TGTGTATC
Found at i:36993366 original size:21 final size:23
Alignment explanation
Indices: 36993341--36993385 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
36993331 TTCATTCTCA
36993341 TCTTTTGTCTC-TT-TCTCTTTT
1 TCTTTTGTCTCGTTCTCTCTTTT
*
36993362 TCTTTTGTTTCGTTCTCTCTTTT
1 TCTTTTGTCTCGTTCTCTCTTTT
36993385 T
1 T
36993386 TTATCAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.00, C:0.22, G:0.07, T:0.71
Consensus pattern (23 bp):
TCTTTTGTCTCGTTCTCTCTTTT
Found at i:36999953 original size:40 final size:40
Alignment explanation
Indices: 36999909--37000132 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
36999899 AAGTGAATAT
* * * * **
36999909 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
36999949 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
36999989 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
37000029 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
37000069 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
37000108 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
37000133 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:37000007 original size:80 final size:80
Alignment explanation
Indices: 36999870--37000132 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
36999860 TTGAATGCTG
* * * * *
36999870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
36999932 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
36999950 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
37000015 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
37000030 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
37000094 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
37000109 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37000133 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:37000084 original size:120 final size:120
Alignment explanation
Indices: 36999870--37000132 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
36999860 TTGAATGCTG
* * *
36999870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
36999934 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
36999990 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
37000052 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
37000109 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37000133 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:37009359 original size:45 final size:45
Alignment explanation
Indices: 37009308--37009393 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
37009298 ATGTAACCTA
* * *
37009308 AACTCATTGAA-TTGTGGTTTGAGTTCATGATATATGTGACATCCG
1 AACTCATT-AAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
*
37009353 AACTCATTAAGTTCTGGTCTGAGTTCGTAATATATGTGACA
1 AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACA
37009394 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (45 bp):
AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
Found at i:37013877 original size:19 final size:20
Alignment explanation
Indices: 37013846--37013884 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37013836 CGTCAGTTGA
37013846 TTGGAAGAAAGAAGAAAAAT
1 TTGGAAGAAAGAAGAAAAAT
*
37013866 TTGGAA-AAAGAATAAAAAT
1 TTGGAAGAAAGAAGAAAAAT
37013885 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (20 bp):
TTGGAAGAAAGAAGAAAAAT
Found at i:37015088 original size:26 final size:27
Alignment explanation
Indices: 37015059--37015111 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
37015049 CATAACGTAG
37015059 AAAAGG-ATTTAAAATGAA-TAATATAT
1 AAAAGGAATTTAAAAT-AACTAATATAT
37015085 AAAAGGAAATTTAAAATAACTAATATA
1 AAAAGG-AATTTAAAATAACTAATATA
37015112 CAAACAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 2 0.08
28 16 0.67
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAAGGAATTTAAAATAACTAATATAT
Found at i:37016129 original size:16 final size:16
Alignment explanation
Indices: 37016104--37016142 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
37016094 AGTTTCATAT
*
37016104 AAAAAT-TAAAATAGA
1 AAAAATATAAAATAAA
37016119 AAAAATATAAAATAAA
1 AAAAATATAAAATAAA
37016135 ATAAAATA
1 A-AAAATA
37016143 AACCCGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATATAAAATAAA
Found at i:37016932 original size:49 final size:49
Alignment explanation
Indices: 37016784--37016999 Score: 160
Period size: 49 Copynumber: 4.5 Consensus size: 49
37016774 TATGTGTACT
* * * * *
37016784 AGTGTAAGACATGCCTGAGACAT-GCATCGGCCAC-AT-TATG-GAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
* * * * * **
37016829 AGTGTAAGACATGTCTGGGATAT-ACATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
* *
37016877 AATGTAAGACGTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATAGATGAGAGCC
* * * * * **
37016926 AGTGTAAGACCTGTCTAGGACATGGCATCAACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
*
37016973 AGTGTAATACCATGTCTGGGACATGGC
1 AGTGTAAGA-CATGTCTGGGACATGGC
37017000 GTCAGCATCT
Statistics
Matches: 136, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
45 29 0.21
46 2 0.01
47 18 0.13
48 38 0.28
49 48 0.35
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
Found at i:37018952 original size:22 final size:22
Alignment explanation
Indices: 37018927--37018973 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
37018917 CACATGGGCT
*
37018927 TGTCCCTATGTCCACACAGGCG
1 TGTCCCTATGTCCACACAAGCG
*
37018949 TGTCCTTATGTCCACACAAGCG
1 TGTCCCTATGTCCACACAAGCG
37018971 TGT
1 TGT
37018974 GACCCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.28
Consensus pattern (22 bp):
TGTCCCTATGTCCACACAAGCG
Found at i:37020106 original size:28 final size:29
Alignment explanation
Indices: 37020046--37020106 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
37020036 TTACATGGAC
*
37020046 TGATTATTTAACTAATAAACGAAGTACAA
1 TGATTATTTAACTAAAAAACGAAGTACAA
*
37020075 -GATTATTTAACTATAAAAAC-AA-TATAA
1 TGATTATTTAACTA-AAAAACGAAGTACAA
37020102 TGATT
1 TGATT
37020107 TTGTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.14
28 19 0.68
29 5 0.18
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (29 bp):
TGATTATTTAACTAAAAAACGAAGTACAA
Found at i:37020129 original size:21 final size:21
Alignment explanation
Indices: 37020099--37020141 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
37020089 AAAAACAATA
37020099 TAATGATTTTG-TATTTTAACT
1 TAATGATTTTGAT-TTTTAACT
*
37020120 TAATGGTTTTGATTTTTAACT
1 TAATGATTTTGATTTTTAACT
37020141 T
1 T
37020142 TAAAAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (21 bp):
TAATGATTTTGATTTTTAACT
Found at i:37022088 original size:22 final size:23
Alignment explanation
Indices: 37022041--37022088 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
37022031 TTTATCTTCG
* **
37022041 TTAATTAATTAGTTTGAGTTTTT
1 TTAAGTAATTAGTTTGAGTTAAT
37022064 TTAAGTAA-TAGTTTGAGTTAAT
1 TTAAGTAATTAGTTTGAGTTAAT
37022086 TTA
1 TTA
37022089 GTTTTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (23 bp):
TTAAGTAATTAGTTTGAGTTAAT
Found at i:37024144 original size:43 final size:40
Alignment explanation
Indices: 37024063--37024183 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 40
37024053 GTTAAGATTA
** *
37024063 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
1 CGTGTAAGACCATAT-TGGGATATGGCATTGATATGAGA-TC
*
37024105 CGTGTAAGACCATAGTTGGGTTATTGGCATTGATATGAGATC
1 CGTGTAAGACCATA-TTGGGATA-TGGCATTGATATGAGATC
* * *
37024147 CTATGTAAGACTATATTTGGGATATGGCATTGGTATG
1 C-GTGTAAGACCATA-TTGGGATATGGCATTGATATG
37024184 GTACTATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 34 0.51
43 33 0.49
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (40 bp):
CGTGTAAGACCATATTGGGATATGGCATTGATATGAGATC
Found at i:37025064 original size:40 final size:42
Alignment explanation
Indices: 37025020--37025099 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
37025010 TATTTTTGCC
* *
37025020 CACATGGGTAG-AC-ATGGGTGTGT-GTCTAGGCCGTGTGTGA
1 CACATGGCTAGCACTATGGGTGTGTAATC-AGGCCGTGTGTGA
*
37025060 CACATGGCTAGCCCTATGGGTGTGTAATCAGGCCGTGTGT
1 CACATGGCTAGCACTATGGGTGTGTAATCAGGCCGTGTGT
37025100 CCCTTGCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 1 0.03
42 21 0.62
43 2 0.06
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (42 bp):
CACATGGCTAGCACTATGGGTGTGTAATCAGGCCGTGTGTGA
Found at i:37031077 original size:21 final size:21
Alignment explanation
Indices: 37031051--37031096 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
37031041 TTACCCCAAG
37031051 GAAGTCGATTGATCCATCTCA
1 GAAGTCGATTGATCCATCTCA
37031072 GAAGTCGATTGATCCATCTCA
1 GAAGTCGATTGATCCATCTCA
37031093 GAAG
1 GAAG
37031097 CCGAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
GAAGTCGATTGATCCATCTCA
Found at i:37031110 original size:21 final size:21
Alignment explanation
Indices: 37031051--37031107 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
37031041 TTACCCCAAG
* *
37031051 GAAGTCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
* *
37031072 GAAGTCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
37031093 GAAGCCGAATTCATC
1 GAAGCCG-ATTCATC
37031108 ATCAAGACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (21 bp):
GAAGCCGATTCATCCATCTCA
Found at i:37033761 original size:43 final size:42
Alignment explanation
Indices: 37033672--37033783 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
37033662 TGAGATTACG
* * * *
37033672 TGTAAGACCATA-TCTAGGATATGACATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
*
37033714 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
37033757 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATAGTTGGGATATGGCAT
37033784 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:37036284 original size:26 final size:26
Alignment explanation
Indices: 37036255--37036362 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
37036245 TGATACAAAT
37036255 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
37036281 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37036307 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
37036333 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37036359 TGAT
1 TGAT
37036363 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:37041242 original size:24 final size:24
Alignment explanation
Indices: 37041210--37041257 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
37041200 AGTTGTAGAG
37041210 CTGTATCTGATCTGAGAGCAATGT
1 CTGTATCTGATCTGAGAGCAATGT
37041234 CTGTATCTGATCTGAGAGCAATGT
1 CTGTATCTGATCTGAGAGCAATGT
37041258 TTGCTCGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CTGTATCTGATCTGAGAGCAATGT
Found at i:37043079 original size:26 final size:26
Alignment explanation
Indices: 37043050--37043121 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
37043040 TGGTACAAAT
*
37043050 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
37043076 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
37043102 TGATAATGGGTTAGGTAAAT
1 TGATAATGGGTTAGGTAAAT
37043122 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:37043799 original size:40 final size:40
Alignment explanation
Indices: 37043744--37043921 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
37043734 NNNNNNNNNN
* *
37043744 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
37043784 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
37043824 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
37043864 TCCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* *
37043903 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
37043922 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
38 15 0.12
39 14 0.11
40 96 0.77
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:37065276 original size:13 final size:13
Alignment explanation
Indices: 37065258--37065286 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37065248 ACCTACACAA
37065258 GCACAAGTTCAAG
1 GCACAAGTTCAAG
37065271 GCACAAGTTCAAG
1 GCACAAGTTCAAG
37065284 GCA
1 GCA
37065287 TAATTCATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (13 bp):
GCACAAGTTCAAG
Found at i:37072934 original size:14 final size:14
Alignment explanation
Indices: 37072915--37072953 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
37072905 TTAAGACAAG
*
37072915 AATTAAGAACTCAT
1 AATTAAGAACACAT
37072929 AATTAAGAACACAT
1 AATTAAGAACACAT
37072943 AATTAAGAACA
1 AATTAAGAACA
37072954 AGTCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:37087505 original size:18 final size:18
Alignment explanation
Indices: 37087482--37087519 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37087472 AGTCCATTTA
*
37087482 TTTATTATCATTTTTATT
1 TTTATTATCATTTTAATT
*
37087500 TTTATTTTCATTTTAATT
1 TTTATTATCATTTTAATT
37087518 TT
1 TT
37087520 AATTTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTATCATTTTAATT
Found at i:37087532 original size:18 final size:18
Alignment explanation
Indices: 37087489--37087524 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37087479 TTATTTATTA
* *
37087489 TCATTTTTATTTTTATTT
1 TCATTTTAATTTTAATTT
37087507 TCATTTTAATTTTAATTT
1 TCATTTTAATTTTAATTT
37087525 GTCTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TCATTTTAATTTTAATTT
Found at i:37087535 original size:17 final size:17
Alignment explanation
Indices: 37087493--37087535 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
37087483 TTATTATCAT
*
37087493 TTTTATTTTTATTTTCA
1 TTTTATTTTAATTTTCA
37087510 TTTTAATTTTAATTTGTC-
1 TTTT-ATTTTAATTT-TCA
37087528 TTTTATTT
1 TTTTATTT
37087536 ACTTTTGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 13 0.57
19 2 0.09
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATTTTAATTTTCA
Found at i:37095437 original size:485 final size:486
Alignment explanation
Indices: 37094428--37095453 Score: 1838
Period size: 486 Copynumber: 2.1 Consensus size: 486
37094418 TCCTACTAAT
* *
37094428 TTCTTAGGTGGAGTAGCAATAGTCTTTCCTGAACCATGAGTTTCCTTAAGGATTGATGAGACGTC
1 TTCTTAGGTGGAGTAGCAATAGTCTTTCTTAAACCATGAGTTTCCTTAAGGATTGATGAGACGTC
* *
37094493 TATCTCTTGTGAATTAGAAGAAGAGGAAGGTCATACACCATCAATGATAAAGTTAGCTTAATGAG
66 TATCTCTTGAGAATTAGAAGAAGAGGAAGGTCATACACCATCAATGAGAAAGTTAGCTTAATGAG
* *
37094558 AAGAAGAAGTAGAATCAGAAACAACAATAGTAATGATATTCTAGTTTCATGGAGAGAAGCCACAA
131 AAGAAGAAGCAGAATCAGAAACAACAATAGTAATGATATTCTAGTTTCATGGAAAGAAGCCACAA
* *
37094623 ATGTGGTAAAAGTAGAAGTGTGGCTCTCTTTTGCGCCATAGTAGTATTTTTGCTAAATGATCATA
196 ATGTGGTAAAAGTAGAAGCGTGGCTCTCTTTTGCGCCATAGTAGTATTTTTGCTAAATCATCATA
* * * *
37094688 TGAGGTAAACGACCAAGCTTTATAGAAAAAAAAAGCACATTTTGACCATCTAATGCCATGTTGGG
261 TAAGGTAAACAACCAAGCTTTATAGAAAAAAAAAGCAAACTTTGACCATCTAATGCCATGTTGGG
* *
37094753 CCCACTCCCTCAAAATCGATTTGGGCTAAGCTCGTAATTATTGAAATATGTTTCTGATTGAAACT
326 CCCACTCCCTCAAAATCCATTTGGGCTAAGCTCGTAATTATTGAAATATGTTTCTGACTGAAACT
37094818 AGTACCACCAAGTCTAACACACGTCCCTTTTTCAACCACTTAGACTGAACTTCAGAAAGCACAAA
391 AGTACCACCAAGTCTAACACACGTCCCTTTTTCAACCACTTAGACTGAACTTCAGAAAGCACAAA
37094883 ATCCAGTGGTTGCCACTGATTACATGTACTC
456 ATCCAGTGGTTGCCACTGATTACATGTACTC
37094914 TTCTTAGGTGGAGTAGCAATAGTCTTTCTTAAACCATGAGTTTCCTTAAGGATTGATGAGACGTC
1 TTCTTAGGTGGAGTAGCAATAGTCTTTCTTAAACCATGAGTTTCCTTAAGGATTGATGAGACGTC
* *
37094979 TATCTCTTGAGAATTGGAAGAAGATGAAGGTCATACACCATCAATGAGAAAGTTAGCTTAATGAG
66 TATCTCTTGAGAATTAGAAGAAGAGGAAGGTCATACACCATCAATGAGAAAGTTAGCTTAATGAG
37095044 AAGAAGAAGCAGAATCAGAAACAACAATAGTAATGATATTCTAGTTTCATGGAAAGAAGCCACAA
131 AAGAAGAAGCAGAATCAGAAACAACAATAGTAATGATATTCTAGTTTCATGGAAAGAAGCCACAA
* *
37095109 ATGTGGTAAAAGTAGAAGCGTGGCTCTCTTTTGCGCCATAGTAGTATTTTTGTTAAATCATCATC
196 ATGTGGTAAAAGTAGAAGCGTGGCTCTCTTTTGCGCCATAGTAGTATTTTTGCTAAATCATCATA
* *
37095174 TAAGGTACACAACCAAGCTTTATAG-GAAAAAAAGCAAACTTTGACCATCTAATGCCATGTTGGG
261 TAAGGTAAACAACCAAGCTTTATAGAAAAAAAAAGCAAACTTTGACCATCTAATGCCATGTTGGG
37095238 CCCACTCCCTCAAAATCCATTTGGGCTAAGCTCGTAATTATTGAAATATGTTTCTGACTGAAACT
326 CCCACTCCCTCAAAATCCATTTGGGCTAAGCTCGTAATTATTGAAATATGTTTCTGACTGAAACT
* * *
37095303 AGTCCCACCAAGTCTAACACACGTCCCTTTTTCAACCGCTTAGTCTGAACTTCAGAAAGCACAAA
391 AGTACCACCAAGTCTAACACACGTCCCTTTTTCAACCACTTAGACTGAACTTCAGAAAGCACAAA
37095368 ATCCAGTGGTTGCCACTGATTACATGTACTC
456 ATCCAGTGGTTGCCACTGATTACATGTACTC
37095399 TTCTTAGGTGGAGTAGCAATAGTCTTTCTTAAACCATGAGTTTCCTTAAGGATTG
1 TTCTTAGGTGGAGTAGCAATAGTCTTTCTTAAACCATGAGTTTCCTTAAGGATTG
37095454 GAATTTACCC
Statistics
Matches: 517, Mismatches: 23, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
485 247 0.48
486 270 0.52
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (486 bp):
TTCTTAGGTGGAGTAGCAATAGTCTTTCTTAAACCATGAGTTTCCTTAAGGATTGATGAGACGTC
TATCTCTTGAGAATTAGAAGAAGAGGAAGGTCATACACCATCAATGAGAAAGTTAGCTTAATGAG
AAGAAGAAGCAGAATCAGAAACAACAATAGTAATGATATTCTAGTTTCATGGAAAGAAGCCACAA
ATGTGGTAAAAGTAGAAGCGTGGCTCTCTTTTGCGCCATAGTAGTATTTTTGCTAAATCATCATA
TAAGGTAAACAACCAAGCTTTATAGAAAAAAAAAGCAAACTTTGACCATCTAATGCCATGTTGGG
CCCACTCCCTCAAAATCCATTTGGGCTAAGCTCGTAATTATTGAAATATGTTTCTGACTGAAACT
AGTACCACCAAGTCTAACACACGTCCCTTTTTCAACCACTTAGACTGAACTTCAGAAAGCACAAA
ATCCAGTGGTTGCCACTGATTACATGTACTC
Found at i:37097981 original size:30 final size:30
Alignment explanation
Indices: 37097947--37098007 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37097937 TCCTTAACTC
37097947 AAACTTTAGCAAAATTACAATTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
* ** * *
37097977 AAACTTTTGCGTATTTACACTTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
37098007 A
1 A
37098008 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTAGCAAAATTACAATTTTGCCCCT
Found at i:37104475 original size:21 final size:21
Alignment explanation
Indices: 37104429--37104476 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
37104419 AGGGATCTGG
37104429 GCGTGTCCCTAGACCACAAGA
1 GCGTGTCCCTAGACCACAAGA
* * *
37104450 ACGTGTCCCTAGACTACACGA
1 GCGTGTCCCTAGACCACAAGA
37104471 GCGTGT
1 GCGTGT
37104477 GAGCCCTGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (21 bp):
GCGTGTCCCTAGACCACAAGA
Found at i:37106671 original size:16 final size:16
Alignment explanation
Indices: 37106633--37106665 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37106623 CTTGAGATAA
37106633 AATCCATGGTAATTCT
1 AATCCATGGTAATTCT
37106649 AATCCATGGTAATTCT
1 AATCCATGGTAATTCT
37106665 A
1 A
37106666 TCCCATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
AATCCATGGTAATTCT
Found at i:37115169 original size:65 final size:65
Alignment explanation
Indices: 37115056--37115191 Score: 227
Period size: 65 Copynumber: 2.1 Consensus size: 65
37115046 AAAAAGTTCG
*
37115056 ATTCTTTCTTTTTACCATGCCATTCTGTTATGAAGTTTCTAGCATAATTAATTGGAATAATATTT
1 ATTC-TTCTTTTTACCATGCCATTCTGTTATGAAGTTTCTAGCATAATTAATTGGAATAAGATTT
37115121 C
65 C
* * *
37115122 ATTCTTCTTTTTGCCATGCCATTCTGTTATGAAGTTTCTAGCGTAATTAATTGGAATAAGATTTT
1 ATTCTTCTTTTTACCATGCCATTCTGTTATGAAGTTTCTAGCATAATTAATTGGAATAAGATTTC
37115187 ATTCT
1 ATTCT
37115192 CTACGAGGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 62 0.94
66 4 0.06
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (65 bp):
ATTCTTCTTTTTACCATGCCATTCTGTTATGAAGTTTCTAGCATAATTAATTGGAATAAGATTTC
Found at i:37116794 original size:21 final size:21
Alignment explanation
Indices: 37116769--37116813 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37116759 ATCTTAAGAT
*
37116769 TATAATTCAACAATTT-GAATA
1 TATAAATCAA-AATTTAGAATA
*
37116790 TATAAATCAAAATTTAGCATA
1 TATAAATCAAAATTTAGAATA
37116811 TAT
1 TAT
37116814 TAGCTAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (21 bp):
TATAAATCAAAATTTAGAATA
Done.