Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 180 of 290
Found at i:61610124 original size:13 final size:13
Alignment explanation
Indices: 61610106--61610131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61610096 ATTTTTATTT
61610106 TTAACATAAAATA
1 TTAACATAAAATA
61610119 TTAACATAAAATA
1 TTAACATAAAATA
61610132 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:61617706 original size:13 final size:13
Alignment explanation
Indices: 61617688--61617713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61617678 ATTTTTATTT
61617688 TTAACATAAAATA
1 TTAACATAAAATA
61617701 TTAACATAAAATA
1 TTAACATAAAATA
61617714 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:61623534 original size:29 final size:30
Alignment explanation
Indices: 61623502--61623571 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
61623492 CTATCGAATT
* *
61623502 ATGAAAAGGGATGGTGATGACCATC-AACA
1 ATGAAAAGGGATCGTGACGACCATCAAACA
*
61623531 ATGAAAA-GGATCGTGACGACCGTCAAACA
1 ATGAAAAGGGATCGTGACGACCATCAAACA
*
61623560 ATAAAAAGGGAT
1 ATGAAAAGGGAT
61623572 AGCTTTGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.40
29 17 0.49
30 4 0.11
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.16
Consensus pattern (30 bp):
ATGAAAAGGGATCGTGACGACCATCAAACA
Found at i:61623686 original size:30 final size:30
Alignment explanation
Indices: 61623616--61623687 Score: 96
Period size: 29 Copynumber: 2.4 Consensus size: 30
61623606 TTCAGCAATT
61623616 AAATTATGAAAAGGGATGGTAACAACCATC
1 AAATTATGAAAAGGGATGGTAACAACCATC
*
61623646 AACA--ATGAAAAGGGATGGTGAA-GACCATC
1 AA-ATTATGAAAAGGGATGGT-AACAACCATC
61623675 AAATTATGAAAAG
1 AAATTATGAAAAG
61623688 TGATAGCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 1 0.03
29 23 0.62
30 12 0.32
31 1 0.03
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (30 bp):
AAATTATGAAAAGGGATGGTAACAACCATC
Found at i:61623706 original size:30 final size:30
Alignment explanation
Indices: 61623563--61623745 Score: 131
Period size: 30 Copynumber: 6.1 Consensus size: 30
61623553 TCAAACAATA
*** *
61623563 AAAAGGGATAGCTTTGGCTATCAAAATTTTG
1 AAAAGGGATAGCTTCAACTATC-AAATTATG
* * * *
61623594 AAAAGGGGTAGCTTCAGCAATTAAATTATG
1 AAAAGGGATAGCTTCAACTATCAAATTATG
* * *
61623624 AAAAGGGAT-GGTAACAACCATCAACA--ATG
1 AAAAGGGATAGCT-TCAACTATCAA-ATTATG
* ** *
61623653 AAAAGGGAT-GGTGAAGACCATCAAATTATG
1 AAAAGGGATAGCTTCA-ACTATCAAATTATG
* **
61623683 AAAAGTGATAGCTTCAGTTATCAAATTATG
1 AAAAGGGATAGCTTCAACTATCAAATTATG
*
61623713 AAAAGGGATAGCTTCAACTATCGAATTATG
1 AAAAGGGATAGCTTCAACTATCAAATTATG
61623743 AAA
1 AAA
61623746 CAAGTTAGCT
Statistics
Matches: 121, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
28 2 0.02
29 25 0.21
30 73 0.60
31 21 0.17
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (30 bp):
AAAAGGGATAGCTTCAACTATCAAATTATG
Found at i:61623740 original size:119 final size:119
Alignment explanation
Indices: 61623476--61623745 Score: 344
Period size: 119 Copynumber: 2.3 Consensus size: 119
61623466 CGACTAATGG
* * **
61623476 AAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGATGACCATCAACAATGAAAAGGA
1 AAAGGGATAGCTTCAACTATCGAATTATGAAAAGGGATGGTAACAACCATCAACAATGAAAAGGA
* * ** *
61623541 TCGTGACGACCGTCAAACAATAAAAAGGGATAGCTTTGGCTATCAAAATTTTGA
66 TCGTGAAGACCATCAAACAATAAAAAGGGATAGCTTCAGCTATCAAAATTATGA
* * * **
61623595 AAAGGGGTAGCTTCAGCAATTAAATTATGAAAAGGGATGGTAACAACCATCAACAATGAAAAGGG
1 AAAGGGATAGCTTCAACTATCGAATTATGAAAAGGGATGGTAACAACCATCAACAATGAAAA-GG
* ** * * *
61623660 ATGGTGAAGACCATCAAATTATGAAAAGTGATAGCTTCAGTTATC-AAATTATGA
65 ATCGTGAAGACCATCAAACAATAAAAAGGGATAGCTTCAGCTATCAAAATTATGA
61623714 AAAGGGATAGCTTCAACTATCGAATTATGAAA
1 AAAGGGATAGCTTCAACTATCGAATTATGAAA
61623746 CAAGTTAGCT
Statistics
Matches: 125, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
119 88 0.70
120 37 0.30
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (119 bp):
AAAGGGATAGCTTCAACTATCGAATTATGAAAAGGGATGGTAACAACCATCAACAATGAAAAGGA
TCGTGAAGACCATCAAACAATAAAAAGGGATAGCTTCAGCTATCAAAATTATGA
Found at i:61625668 original size:48 final size:48
Alignment explanation
Indices: 61625600--61625844 Score: 196
Period size: 48 Copynumber: 5.1 Consensus size: 48
61625590 ATCCTGTATC
* * * * * *
61625600 AGACCATATCTGGGATATGGCATCGGCATCGATATTTGATCCTATGTA
1 AGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTA
* * * *
61625648 AGACCATTTTTAGGACATGGCATTGGCATTGTTATGTGATCCCATGTA
1 AGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTA
* * * *
61625696 AGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAACATCATGTA
1 AGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATC-CCATGTA
* * * *
61625745 AGACCATAG-CT-GGGCTATCGGC-TTCG-AT--ATGTGTGACCCCATGTA
1 AGACCAT-GTCTAGGAC-AT-GGCATTGGCATCGATATGTGATCCCATGTA
* * * * * *
61625790 AAACCATGTCTGGGACATGGAATTGGCATCGATAAGTGGTCCCATATA
1 AGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTA
61625838 AGACCAT
1 AGACCAT
61625845 ATTCAAGATA
Statistics
Matches: 154, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
44 3 0.02
45 19 0.12
46 12 0.08
48 96 0.62
49 20 0.13
50 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
AGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATGTA
Found at i:61629161 original size:13 final size:13
Alignment explanation
Indices: 61629124--61629162 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
61629114 AAATATTTGA
61629124 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
61629137 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
*
61629151 CTTGTTTTTAAT
1 CTTGTTCTTAAT
61629163 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:61633055 original size:13 final size:13
Alignment explanation
Indices: 61633039--61633065 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61633029 AACGAAGCAA
61633039 GACATGGCCGTGT
1 GACATGGCCGTGT
61633052 GACATGGCCGTGT
1 GACATGGCCGTGT
61633065 G
1 G
61633066 CACTAACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.41, T:0.22
Consensus pattern (13 bp):
GACATGGCCGTGT
Found at i:61637438 original size:13 final size:13
Alignment explanation
Indices: 61637401--61637439 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
61637391 AAATATTTGA
61637401 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
61637414 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
*
61637428 CTTGTTTTTAAT
1 CTTGTTCTTAAT
61637440 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:61638080 original size:769 final size:769
Alignment explanation
Indices: 61636754--61638291 Score: 3076
Period size: 769 Copynumber: 2.0 Consensus size: 769
61636744 TATGCTTAGC
61636754 ATATTTATGGATGGTTTCTCTTTAAAATTGGTGAATTCGATGCTCCAAATCCTTTAATTTCATGT
1 ATATTTATGGATGGTTTCTCTTTAAAATTGGTGAATTCGATGCTCCAAATCCTTTAATTTCATGT
61636819 TTTATACTTATGTGAGTATAGGAGAGTAAAAAGGTCGAGAAATGGGCCAAAAATAGAGAAAATGG
66 TTTATACTTATGTGAGTATAGGAGAGTAAAAAGGTCGAGAAATGGGCCAAAAATAGAGAAAATGG
61636884 ACCCACACGAGAAATCAACACAGCCTGGACTTCCTCACACGAGCATGTCACACGGTCGTGTCCCT
131 ACCCACACGAGAAATCAACACAGCCTGGACTTCCTCACACGAGCATGTCACACGGTCGTGTCCCT
61636949 TTGGTAAGATCGAAGCATGACTTACACGGGCAGATCACATGCCCGTGCCCATTTAACAGCCTTGA
196 TTGGTAAGATCGAAGCATGACTTACACGGGCAGATCACATGCCCGTGCCCATTTAACAGCCTTGA
61637014 CCACGGCTTTAAGTAATCGCACACGGGCGTCTCCCTGCTGAGCCCAAGTTTAGTCCAATTCGGAA
261 CCACGGCTTTAAGTAATCGCACACGGGCGTCTCCCTGCTGAGCCCAAGTTTAGTCCAATTCGGAA
61637079 AAGGCCAATTTTGGGGGCTTTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGA
326 AAGGCCAATTTTGGGGGCTTTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGA
61637144 AGGGGACGGAGAGTAGGAAGCAAGAAATTACTCAACGAAAGCCGATTGATCCATCTCAAGAGCCG
391 AGGGGACGGAGAGTAGGAAGCAAGAAATTACTCAACGAAAGCCGATTGATCCATCTCAAGAGCCG
61637209 GATTCATCATCAAGACTGAGGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGGTTTTCTTATGTT
456 GATTCATCATCAAGACTGAGGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGGTTTTCTTATGTT
61637274 TTATTATCTTTATGCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCCCCTAAATACCTA
521 TTATTATCTTTATGCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCCCCTAAATACCTA
61637339 AGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATTTGAATTGTATGATAAATATTTGACTT
586 AGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATTTGAATTGTATGATAAATATTTGACTT
61637404 GTTCTTAATTATGTGTTCTTAATTCTTGTTTTTAATATTCCAGGATATTGATTCAAGTTAACGCC
651 GTTCTTAATTATGTGTTCTTAATTCTTGTTTTTAATATTCCAGGATATTGATTCAAGTTAACGCC
61637469 CTTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTAAATTGTCATAATTAAGCG
716 CTTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTAAATTGTCATAATTAAGCG
61637523 ATATTTATGGATGGTTTCTCTTTAAAATTGGTGAATTCGATGCTCCAAATCCTTTAATTTCATGT
1 ATATTTATGGATGGTTTCTCTTTAAAATTGGTGAATTCGATGCTCCAAATCCTTTAATTTCATGT
61637588 TTTATACTTATGTGAGTATAGGAGAGTAAAAAGGTCGAGAAATGGGCCAAAAATAGAGAAAATGG
66 TTTATACTTATGTGAGTATAGGAGAGTAAAAAGGTCGAGAAATGGGCCAAAAATAGAGAAAATGG
61637653 ACCCACACGAGAAATCAACACAGCCTGGACTTCCTCACACGAGCATGTCACACGGTCGTGTCCCT
131 ACCCACACGAGAAATCAACACAGCCTGGACTTCCTCACACGAGCATGTCACACGGTCGTGTCCCT
61637718 TTGGTAAGATCGAAGCATGACTTACACGGGCAGATCACATGCCCGTGCCCATTTAACAGCCTTGA
196 TTGGTAAGATCGAAGCATGACTTACACGGGCAGATCACATGCCCGTGCCCATTTAACAGCCTTGA
61637783 CCACGGCTTTAAGTAATCGCACACGGGCGTCTCCCTGCTGAGCCCAAGTTTAGTCCAATTCGGAA
261 CCACGGCTTTAAGTAATCGCACACGGGCGTCTCCCTGCTGAGCCCAAGTTTAGTCCAATTCGGAA
61637848 AAGGCCAATTTTGGGGGCTTTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGA
326 AAGGCCAATTTTGGGGGCTTTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGA
61637913 AGGGGACGGAGAGTAGGAAGCAAGAAATTACTCAACGAAAGCCGATTGATCCATCTCAAGAGCCG
391 AGGGGACGGAGAGTAGGAAGCAAGAAATTACTCAACGAAAGCCGATTGATCCATCTCAAGAGCCG
61637978 GATTCATCATCAAGACTGAGGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGGTTTTCTTATGTT
456 GATTCATCATCAAGACTGAGGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGGTTTTCTTATGTT
61638043 TTATTATCTTTATGCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCCCCTAAATACCTA
521 TTATTATCTTTATGCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCCCCTAAATACCTA
61638108 AGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATTTGAATTGTATGATAAATATTTGACTT
586 AGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATTTGAATTGTATGATAAATATTTGACTT
61638173 GTTCTTAATTATGTGTTCTTAATTCTTGTTTTTAATATTCCAGGATATTGATTCAAGTTAACGCC
651 GTTCTTAATTATGTGTTCTTAATTCTTGTTTTTAATATTCCAGGATATTGATTCAAGTTAACGCC
61638238 CTTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTAAATTGTCATAATTAAGCG
716 CTTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTAAATTGTCATAATTAAGCG
61638292 TAGTTGATTG
Statistics
Matches: 769, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
769 769 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (769 bp):
ATATTTATGGATGGTTTCTCTTTAAAATTGGTGAATTCGATGCTCCAAATCCTTTAATTTCATGT
TTTATACTTATGTGAGTATAGGAGAGTAAAAAGGTCGAGAAATGGGCCAAAAATAGAGAAAATGG
ACCCACACGAGAAATCAACACAGCCTGGACTTCCTCACACGAGCATGTCACACGGTCGTGTCCCT
TTGGTAAGATCGAAGCATGACTTACACGGGCAGATCACATGCCCGTGCCCATTTAACAGCCTTGA
CCACGGCTTTAAGTAATCGCACACGGGCGTCTCCCTGCTGAGCCCAAGTTTAGTCCAATTCGGAA
AAGGCCAATTTTGGGGGCTTTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGA
AGGGGACGGAGAGTAGGAAGCAAGAAATTACTCAACGAAAGCCGATTGATCCATCTCAAGAGCCG
GATTCATCATCAAGACTGAGGATCTCCCTTCAAGTTCCTTCAGGAGTTTTGGGTTTTCTTATGTT
TTATTATCTTTATGCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCCCCTAAATACCTA
AGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATTTGAATTGTATGATAAATATTTGACTT
GTTCTTAATTATGTGTTCTTAATTCTTGTTTTTAATATTCCAGGATATTGATTCAAGTTAACGCC
CTTATTCAGAGGAGGAATAGACCCTGTCTAAGAGTAAATTGTCATAATTAAGCG
Found at i:61638207 original size:13 final size:13
Alignment explanation
Indices: 61638170--61638208 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
61638160 AAATATTTGA
61638170 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
61638183 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
*
61638197 CTTGTTTTTAAT
1 CTTGTTCTTAAT
61638209 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:61641534 original size:34 final size:34
Alignment explanation
Indices: 61641491--61641564 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
61641481 CCCTAAGTGC
61641491 CACATACATAGTTGAAGCTATCTCAATGTTGTAT
1 CACATACATAGTTGAAGCTATCTCAATGTTGTAT
61641525 CACATACATAGTTGAAGCTATCTCAATGTTGTAT
1 CACATACATAGTTGAAGCTATCTCAATGTTGTAT
61641559 CACATA
1 CACATA
61641565 TAATGCTCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (34 bp):
CACATACATAGTTGAAGCTATCTCAATGTTGTAT
Found at i:61644196 original size:28 final size:28
Alignment explanation
Indices: 61644165--61644224 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
61644155 TAAAGAGATT
*
61644165 TAAACATAGAACT-TGTACAAAGCAAAGC
1 TAAACAGAGAACTCT-TACAAAGCAAAGC
* * *
61644193 TAAACAGAGAGCTCTTATAAAGCAGAGC
1 TAAACAGAGAACTCTTACAAAGCAAAGC
61644221 TAAA
1 TAAA
61644225 AGATTTGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (28 bp):
TAAACAGAGAACTCTTACAAAGCAAAGC
Found at i:61645478 original size:16 final size:15
Alignment explanation
Indices: 61645420--61645478 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
61645410 AAGATGACAT
*
61645420 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
61645435 GAAGTCCAGGACAAA
1 GAAATCCAAGATAAA
*
61645450 GAAATCTAAGATAAA
1 GAAATCCAAGATAAA
61645465 GAAATTCCAAGATA
1 GAAA-TCCAAGATA
61645479 CAATATCATA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
15 26 0.76
16 8 0.24
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:61645489 original size:26 final size:26
Alignment explanation
Indices: 61645460--61645519 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
61645450 GAAATCTAAG
*
61645460 ATAAAGAAATTCCAAGATACAA-TATC
1 ATAAAGAAAGTCCAAGA-ACAACTATC
* * *
61645486 ATAATGAAAGTCCCAGAACAACTCTC
1 ATAAAGAAAGTCCAAGAACAACTATC
61645512 AT-AAGAAA
1 ATAAAGAAA
61645520 AATATGAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (26 bp):
ATAAAGAAAGTCCAAGAACAACTATC
Found at i:61659181 original size:85 final size:85
Alignment explanation
Indices: 61659033--61659193 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 85
61659023 CGGAAAGCAT
* * * * * *
61659033 ATACAATGCCAACGTTCCAGACGTGGTCTTACATGTAATCAAACATTGATGCCACTATCCCAGAC
1 ATACAATGCCAACGTCCCAAACATGGTCTTACACGTAAACAAACATCGATGCCACTATCCCAGAC
61659098 AGGGTCTTACATGAAATCAG
66 AGGGTCTTACATGAAATCAG
* * *
61659118 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAACAAA-AGTCGATGCCAAC-GTCCCAG
1 ATACAATGCCAACGTCCCAAACATGGTCTTACACGTAAACAAACA-TCGATGCC-ACTATCCCAG
*
61659181 ACATGGTCTTACA
64 ACAGGGTCTTACA
61659194 CGATATCACA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.02
85 61 0.95
86 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAAACATGGTCTTACACGTAAACAAACATCGATGCCACTATCCCAGAC
AGGGTCTTACATGAAATCAG
Found at i:61659194 original size:43 final size:42
Alignment explanation
Indices: 61659038--61659195 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
61659028 AGCATATACA
* * * * *
61659038 ATGCCAACGTTCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAA-ATCG
* * * *
61659081 ATGCC-ACTATCCCAGACAGGGTCTTACATG-AAATC-AGATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAA-CAAAAT-CG
* *
61659123 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACAAAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAAA-TCG
61659166 ATGCCAACGTCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
61659196 ATATCACATA
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 60 0.65
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACAAAATCG
Found at i:61664099 original size:17 final size:18
Alignment explanation
Indices: 61664079--61664116 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61664069 TTGAGAGATT
*
61664079 TTTTAAG-GAGTTTAGAA
1 TTTTAAGAGAGGTTAGAA
*
61664096 TTTTAAGATAGGTTAGAA
1 TTTTAAGAGAGGTTAGAA
61664114 TTT
1 TTT
61664117 GAGTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
TTTTAAGAGAGGTTAGAA
Found at i:61667633 original size:21 final size:20
Alignment explanation
Indices: 61667592--61667636 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
61667582 AGCACATGTA
*
61667592 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAATTT
*
61667612 TTCATCAAAA-TTTACAACTT
1 TTCAT-AAAATTTTACAATTT
61667632 TTCAT
1 TTCAT
61667637 TTTAGTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:61669719 original size:26 final size:27
Alignment explanation
Indices: 61669690--61669813 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
61669680 TTAGTTTACC
*
61669690 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* *
61669716 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCCCAGTTTGTA
* * *
61669743 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
** *
61669770 AAATTACCGAAATACCTTCAGTTTGCA
1 AAATTACCGAAATACCCCCAGTTTGTA
*
61669797 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
61669814 TCGACATGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.04
26 16 0.20
27 58 0.72
28 4 0.05
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAGTTTGTA
Found at i:61669734 original size:27 final size:25
Alignment explanation
Indices: 61669690--61669840 Score: 86
Period size: 27 Copynumber: 5.6 Consensus size: 25
61669680 TTAGTTTACC
*
61669690 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
* *
61669716 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCAG-TTGTA
* * *
61669743 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATA-CCCCCAGTTGTA
** *
61669770 AAATTACCGAAATACCTTCAGTTTGCA
1 AAATTACC-AAATACCCCCAG-TTGTA
* * **
61669797 AAATTACTGAAATACCCTCGACATGTA
1 AAATTAC-CAAATACCC-CCAGTTGTA
*
61669824 AAATTATCAAAGTACCC
1 AAATTACCAAA-TACCC
61669841 TCGAATTACA
Statistics
Matches: 95, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
25 3 0.03
26 24 0.25
27 59 0.62
28 9 0.09
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:61669853 original size:54 final size:54
Alignment explanation
Indices: 61669684--61669911 Score: 176
Period size: 54 Copynumber: 4.2 Consensus size: 54
61669674 AATACTTTAG
* * * * *
61669684 TTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGG
1 TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
* ** * * *
61669737 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAA-TACCTTC-A
1 TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCTCGA
* * *
61669790 GTTTGCAAAATTACTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
* * ** * * * * ***
61669845 ATTACAAAACTACT-ATTTTACCCTTGATTTATAAAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTGA-AATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
61669899 TTTACAAAATTAC
1 TTTACAAAATTAC
61669912 CGTTTTACCC
Statistics
Matches: 134, Mismatches: 35, Indels: 11
0.74 0.19 0.06
Matches are distributed among these distances:
53 22 0.16
54 108 0.81
55 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
Found at i:61669866 original size:27 final size:27
Alignment explanation
Indices: 61669836--61670137 Score: 352
Period size: 27 Copynumber: 11.2 Consensus size: 27
61669826 ATTATCAAAG
* *
61669836 TACCCTCGAATTACAAAACTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
61669863 TACCCTTGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
**
61669890 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
61669917 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
61669944 TACCCTCGATTTAAAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
61669971 TACCCTCTATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
61669998 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
61670025 TATCCTCGATTGATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
**
61670052 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
61670079 TACCCTTGATTAACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
61670106 CACCCTAGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
61670133 TACCC
1 TACCC
61670138 CTAGGGTGTT
Statistics
Matches: 231, Mismatches: 44, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 231 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:61669895 original size:81 final size:81
Alignment explanation
Indices: 61669809--61670137 Score: 388
Period size: 81 Copynumber: 4.1 Consensus size: 81
61669799 ATTACTGAAA
* * * *** * * * * *
61669809 TACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATTACAAAACTACTATTTTACCCTTGATT
1 TACCCTCGATATATAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
61669874 TATAAAATTACTATTT
66 TATAAAATTACTATTT
* * * *
61669890 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATATATAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
*
61669955 TAAAAAATTACTATTT
66 TATAAAATTACTATTT
* * * * *
61669971 TACCCTCTATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTATCCTCGATT
1 TACCCTCGATATATAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
*
61670036 GATAAAATTACTATTT
66 TATAAAATTACTATTT
* * * * * * *
61670052 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTAACAGAATTACTGTTTCACCCTAGATT
1 TACCCTCGATATATAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
*
61670117 TATAAAATTACCATTT
66 TATAAAATTACTATTT
61670133 TACCC
1 TACCC
61670138 CTAGGGTGTT
Statistics
Matches: 215, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 215 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATATATAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
TATAAAATTACTATTT
Found at i:61670904 original size:21 final size:22
Alignment explanation
Indices: 61670866--61670909 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
61670856 ATATATCTAT
* *
61670866 TCTGGTGACTTTGTCACA-ATA
1 TCTGGTGACTTCGCCACATATA
*
61670887 TCTGGTGGCTTCGCCACATATA
1 TCTGGTGACTTCGCCACATATA
61670909 T
1 T
61670910 ATATCTGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (22 bp):
TCTGGTGACTTCGCCACATATA
Found at i:61670913 original size:26 final size:26
Alignment explanation
Indices: 61670884--61670995 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 26
61670874 CTTTGTCACA
61670884 ATATCTGGTGGCTTCGCCACATATAT
1 ATATCTGGTGGCTTCGCCACATATAT
* * *
61670910 ATATCTGTTCTGGTGGCCTAGCCACAATATCT
1 ATA-----TCTGGTGGCTTCGCCAC-ATATAT
* * * *
61670942 GTATCTGGTGACTTTGTCAC----A-
1 ATATCTGGTGGCTTCGCCACATATAT
61670963 ATATCTGGTGGCTTCGCCACATATAT
1 ATATCTGGTGGCTTCGCCACATATAT
61670989 ATATCTG
1 ATATCTG
61670996 TTCTGGTGGC
Statistics
Matches: 62, Mismatches: 13, Indels: 22
0.64 0.13 0.23
Matches are distributed among these distances:
21 16 0.26
25 1 0.02
26 10 0.16
27 13 0.21
31 15 0.24
32 7 0.11
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
ATATCTGGTGGCTTCGCCACATATAT
Found at i:61670962 original size:27 final size:26
Alignment explanation
Indices: 61670910--61671048 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 26
61670900 CCACATATAT
*
61670910 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
61670936 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
* * *
61670963 ATATCTG--GTGGCTTCG-CC-A-CATATA
1 ATATCTGTTCTGG--T-GACCTAGC-CACA
*
61670988 TATATCTGTTCTGGTGGCCTAGCCACA
1 -ATATCTGTTCTGGTGACCTAGCCACA
* * *
61671015 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
61671042 ATATCTG
1 ATATCTG
61671049 GCAGCCTCGC
Statistics
Matches: 84, Mismatches: 17, Indels: 23
0.68 0.14 0.19
Matches are distributed among these distances:
24 3 0.04
25 3 0.04
26 28 0.33
27 46 0.55
28 4 0.05
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:61670970 original size:79 final size:79
Alignment explanation
Indices: 61670839--61671049 Score: 372
Period size: 79 Copynumber: 2.7 Consensus size: 79
61670829 CTCGCTGTAA
*
61670839 TCTGGTGGCCTCA-CCACATATATCTAT-TCTGGTGACTTTGTCACAATATCTGGTGGCTTCGCC
1 TCTGGTGGCCT-AGCCACA-ATATCTGTATCTGGTGACTTTGTCACAATATCTGGTGGCTTCGCC
61670902 ACATATATATATCTGT
64 ACATATATATATCTGT
61670918 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTTGTCACAATATCTGGTGGCTTCGCCAC
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTTGTCACAATATCTGGTGGCTTCGCCAC
61670983 ATATATATATCTGT
66 ATATATATATCTGT
*
61670997 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGG
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTTGTCACAATATCTGG
61671050 CAGCCTCGCT
Statistics
Matches: 128, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
78 8 0.06
79 120 0.94
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (79 bp):
TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTTGTCACAATATCTGGTGGCTTCGCCAC
ATATATATATCTGT
Found at i:61672579 original size:26 final size:26
Alignment explanation
Indices: 61672550--61672662 Score: 88
Period size: 27 Copynumber: 4.2 Consensus size: 26
61672540 TTAGTTTACC
**
61672550 AAATTACTGAAATACCACCAG-TTGTA
1 AAATTACCCAAATACC-CCAGTTTGTA
* *
61672576 AAATTA-CCAAAGTACCCCCGGTTTATA
1 AAATTACCCAAA-TA-CCCCAGTTTGTA
*
61672603 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCCAAATA-CCCCAG-TTTGTA
* *
61672630 AAATTACCAAAATACCCTCAGTTTGCA
1 AAATTACCCAAATACCC-CAGTTTGTA
61672657 AAATTA
1 AAATTA
61672663 TTGAAATACC
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
25 3 0.04
26 14 0.20
27 47 0.67
28 6 0.09
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCCAAATACCCCAGTTTGTA
Found at i:61672648 original size:27 final size:27
Alignment explanation
Indices: 61672571--61672704 Score: 126
Period size: 27 Copynumber: 5.0 Consensus size: 27
61672561 ATACCACCAG
* * *
61672571 TTGTAAAATTACCAAAGTACCCCCGGT
1 TTGTAAAATTACCAAAATACCCTCGAT
* * *
61672598 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
61672625 TTGTAAAATTACCAAAATACCCTC-AGT
1 TTGTAAAATTACCAAAATACCCTCGA-T
* *** *
61672652 TTGCAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAT
* * *
61672679 ATGTAAAATTATCAAAGTACCCTCGA
1 TTGTAAAATTACCAAAATACCCTCGA
61672705 ATTACAAAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAT
Found at i:61672701 original size:54 final size:53
Alignment explanation
Indices: 61672572--61672719 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 53
61672562 TACCACCAGT
* * *** * **
61672572 TGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAATATCCTCGATT
1 TGTAAAATTACCAAAGTACCCTC-GTTTACAAAATTATTGAAATACCCTCGACA
* *
61672626 TGTAAAATTACCAAAATACCCTCAGTTTGCAAAATTATTGAAATACCCTCGACA
1 TGTAAAATTACCAAAGTACCCTC-GTTTACAAAATTATTGAAATACCCTCGACA
* *
61672680 TGTAAAATTATCAAAGTACCCTCGAATTACAAAATTATTG
1 TGTAAAATTACCAAAGTACCCTCG-TTTACAAAATTATTG
61672720 TTTTACCCTC
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 77 0.99
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
TGTAAAATTACCAAAGTACCCTCGTTTACAAAATTATTGAAATACCCTCGACA
Found at i:61672713 original size:27 final size:26
Alignment explanation
Indices: 61672575--61673016 Score: 94
Period size: 27 Copynumber: 16.4 Consensus size: 26
61672565 CACCAGTTGT
* * *
61672575 AAAATTACCAAAGTACCCCCGGTTTAT
1 AAAATTACCAAA-TACCCTCGATTTAC
* **
61672602 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTA-CCAAATACCCTCGATTTAC
*
61672629 AAAATTACCAAAATACCCTC-AGTTTGC
1 AAAATTACC-AAATACCCTCGA-TTTAC
** ** **
61672656 AAAATTATTGAAATACCCTCGACATGT
1 AAAATTA-CCAAATACCCTCGATTTAC
* *
61672683 AAAATTATCAAAGTACCCTCGAATTAC
1 AAAATTACCAAA-TACCCTCGATTTAC
***** * *
61672710 AAAATTATTGTTTTACCCTCAATTTAT
1 AAAATTA-CCAAATACCCTCGATTTAC
* ****
61672737 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTAC-CAAATACCCTCGATTTAC
*** *
61672764 AAAATTACCGTTTTACGCTCGATTTAC
1 AAAATTACC-AAATACCCTCGATTTAC
* ***
61672791 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTCGATTTAC
**** *
61672818 AAAATTACTGTTTTACCCTCAATTTAC
1 AAAATTAC-CAAATACCCTCGATTTAC
* **** *
61672845 AGAATTATCGTTTTACCCTCGATTGAC
1 AAAATTA-CCAAATACCCTCGATTTAC
* *****
61672872 AGAATTATTGTTTTACCCTCGATTTAC
1 AAAATTA-CCAAATACCCTCGATTTAC
**** *
61672899 AAAATTACTGTTTTACCCTTGATTTAC
1 AAAATTAC-CAAATACCCTCGATTTAC
* ** *
61672926 AAAATTACTATTTTACCCTCAATTTAC
1 AAAATTACCA-AATACCCTCGATTTAC
**** *
61672953 AAAATTACTGTTTTACCCTCGATTTAT
1 AAAATTAC-CAAATACCCTCGATTTAC
* ** *
61672980 AAAATTATCATTTTACCCTCGATTTAT
1 AAAATTACCA-AATACCCTCGATTTAC
61673007 AAAATTACCA
1 AAAATTACCA
61673017 TTTCACCCCT
Statistics
Matches: 345, Mismatches: 55, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
26 7 0.02
27 330 0.96
28 8 0.02
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTAC
Found at i:61672754 original size:81 final size:81
Alignment explanation
Indices: 61672669--61673024 Score: 369
Period size: 81 Copynumber: 4.4 Consensus size: 81
61672659 ATTATTGAAA
* ** *** * *
61672669 TACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATTACAAAATTATTGTTTTACCCTCAATT
1 TACCCTCGATATACAAAATTATCATTTTACCCTCGAATTACAAAATTACTGTTTTACCCTCGATT
* *
61672734 TATAGAATTACTGTTT
66 TACAAAATTACTGTTT
* * * * * * *
61672750 TACCCTCGATTTACAAAATTACCGTTTTACGCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATATACAAAATTATCATTTTACCCTCGAATTACAAAATTACTGTTTTACCCTCGATT
61672815 TACAAAATTACTGTTT
66 TACAAAATTACTGTTT
* * * * * *
61672831 TACCCTCAATTTACAGAATTATCGTTTTACCCTCG-ATTGACAGAATTATTGTTTTACCCTCGAT
1 TACCCTCGATATACAAAATTATCATTTTACCCTCGAATT-ACAAAATTACTGTTTTACCCTCGAT
61672895 TTACAAAATTACTGTTT
65 TTACAAAATTACTGTTT
* *
61672912 TACCCTTGATTTACAAAATTA-CTATTTTACCCTC-AATTTACAAAATTACTGTTTTACCCTCGA
1 TACCCTCGATATACAAAATTATC-ATTTTACCCTCGAA-TTACAAAATTACTGTTTTACCCTCGA
* *
61672975 TTTATAAAATTA-TCATTT
64 TTTACAAAATTACT-GTTT
* * * *
61672993 TACCCTCGATTTATAAAATTACCATTTCACCC
1 TACCCTCGATATACAAAATTATCATTTTACCC
61673025 CTAGGGTGTG
Statistics
Matches: 234, Mismatches: 35, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
80 4 0.02
81 227 0.97
82 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATATACAAAATTATCATTTTACCCTCGAATTACAAAATTACTGTTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:61673024 original size:27 final size:27
Alignment explanation
Indices: 61672696--61673014 Score: 426
Period size: 27 Copynumber: 11.8 Consensus size: 27
61672686 ATTATCAAAG
* *
61672696 TACCCTCGAATTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
61672723 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
61672750 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
61672777 TACGCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
61672804 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
61672831 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
61672858 TACCCTCGATTGACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
61672885 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
61672912 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
61672939 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
61672966 TACCCTCGATTTATAAAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
61672993 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAAAATTAC
61673015 CATTTCACCC
Statistics
Matches: 259, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 256 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:61673762 original size:27 final size:26
Alignment explanation
Indices: 61673718--61673769 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61673708 CTCGCTGCAA
*
61673718 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
61673745 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
61673770 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:61673862 original size:27 final size:26
Alignment explanation
Indices: 61673810--61673869 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61673800 ACATATATAT
*
61673810 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
61673836 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
61673863 ATATCTG
1 ATATCTG
61673870 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:61683704 original size:27 final size:27
Alignment explanation
Indices: 61683674--61683726 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
61683664 ACTCAAATCA
61683674 ATCCATAATTCATGCTTTGGTGAAACG
1 ATCCATAATTCATGCTTTGGTGAAACG
61683701 ATCCATAATTCATGCTTTGGTGAAAC
1 ATCCATAATTCATGCTTTGGTGAAAC
61683727 TATCTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (27 bp):
ATCCATAATTCATGCTTTGGTGAAACG
Found at i:61691449 original size:30 final size:30
Alignment explanation
Indices: 61691415--61691475 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61691405 TCCTTAACTC
61691415 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61691445 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61691475 A
1 A
61691476 GGCTCGGGAA
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:61697741 original size:20 final size:20
Alignment explanation
Indices: 61697712--61697756 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
61697702 AGCACATGTA
* *
61697712 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
61697732 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
61697752 TTCAT
1 TTCAT
61697757 TTTGGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:61698366 original size:5 final size:5
Alignment explanation
Indices: 61698356--61698384 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
61698346 GATGCCAACC
61698356 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
61698385 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:61698395 original size:6 final size:6
Alignment explanation
Indices: 61698384--61698414 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
61698374 AAATAAAATA
61698384 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
61698415 ACTTGGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:61703160 original size:39 final size:39
Alignment explanation
Indices: 61703113--61703244 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
61703103 TATATGAGAT
61703113 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* *
61703152 TGGAAATATATCTGGACATGAGGTCCGCAGGCTATATAC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * **
61703191 TGGAAATATATCCGGACTTGAGGTCTGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* *
61703230 TGTAAAAATATCCGG
1 TGGAAATATATCCGG
61703245 GTTAAAGACC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:61710931 original size:39 final size:39
Alignment explanation
Indices: 61710882--61711011 Score: 188
Period size: 39 Copynumber: 3.3 Consensus size: 39
61710872 TATATGAGAT
* * *
61710882 TGGAAGTATATCCGGACATGAGGTCCGCAGGCTATATGT
1 TGGAAATATATCCGGACATGAGGTTCGCAGGCTATATGC
*
61710921 TGGAAATATATCCGGACATGAGGTTCGCGGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTTCGCAGGCTATATGC
* **
61710960 TGGAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTTCGCAGGCTATATGC
*
61710999 TGGAAAAATATCC
1 TGGAAATATATCC
61711012 CGGTTAAAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTTCGCAGGCTATATGC
Found at i:61711940 original size:49 final size:49
Alignment explanation
Indices: 61711855--61711965 Score: 168
Period size: 49 Copynumber: 2.3 Consensus size: 49
61711845 TTACAGGTAA
* * *
61711855 CTTGTCCACAAAATTTATCAATGGTAGTATATCTGCAAATCAGTGGTGG
1 CTTGTCCACAAAATTTATCAATGGCAATATACCTGCAAATCAGTGGTGG
* * *
61711904 CTTGTCTACAAAATTTATCAGTGGCAATATACCTGCATATCAGTGGTGG
1 CTTGTCCACAAAATTTATCAATGGCAATATACCTGCAAATCAGTGGTGG
61711953 CTTGTCCACAAAA
1 CTTGTCCACAAAA
61711966 GTGTTATTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (49 bp):
CTTGTCCACAAAATTTATCAATGGCAATATACCTGCAAATCAGTGGTGG
Found at i:61724041 original size:21 final size:21
Alignment explanation
Indices: 61724017--61724063 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
61724007 TTTGTTTACC
61724017 GAAAATAAAAAGATTTCATTT
1 GAAAATAAAAAGATTTCATTT
61724038 GAAAATAAAAAGATTTCATTT
1 GAAAATAAAAAGATTTCATTT
61724059 GAAAA
1 GAAAA
61724064 CTATTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.11, T:0.30
Consensus pattern (21 bp):
GAAAATAAAAAGATTTCATTT
Found at i:61725994 original size:145 final size:145
Alignment explanation
Indices: 61725731--61726024 Score: 561
Period size: 145 Copynumber: 2.0 Consensus size: 145
61725721 GAGATGACGA
61725731 TATGAGGCTATGACCTTAAAGTAGAATTGCCGTCAGGTATCTAGGATTAAGAAAAGATAATCGTA
1 TATGAGGCTATGACCTTAAAGTAGAATTGCCGTCAGGTATCTAGGATTAAGAAAAGATAATCGTA
*
61725796 GATTTAATGGAAACACAATGTTAAAGGGTTTGGCTTTGAAGAAATCGGTACCTGTAATGTGTGTT
66 GATTTAATGGAAACACAATGTTAAAGGGTTTGGCTTTGAAGAAATCGGTACCTGTAATATGTGTT
61725861 CAAGATTTCGGCTTT
131 CAAGATTTCGGCTTT
*
61725876 TATGAGGCTATGACCTTGAAGTAGAATTGCCGTCAGGTATCTAGGATTAAGAAAAGATAATCGTA
1 TATGAGGCTATGACCTTAAAGTAGAATTGCCGTCAGGTATCTAGGATTAAGAAAAGATAATCGTA
*
61725941 GATTTAATGGAAACACAATGTTAAAGGGTTTGGCTTTGAGGAAATCGGTACCTGTAATATGTGTT
66 GATTTAATGGAAACACAATGTTAAAGGGTTTGGCTTTGAAGAAATCGGTACCTGTAATATGTGTT
61726006 CAAGATTTCGGCTTT
131 CAAGATTTCGGCTTT
61726021 TATG
1 TATG
61726025 GATTCGGCAA
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (145 bp):
TATGAGGCTATGACCTTAAAGTAGAATTGCCGTCAGGTATCTAGGATTAAGAAAAGATAATCGTA
GATTTAATGGAAACACAATGTTAAAGGGTTTGGCTTTGAAGAAATCGGTACCTGTAATATGTGTT
CAAGATTTCGGCTTT
Found at i:61728820 original size:11 final size:11
Alignment explanation
Indices: 61728800--61728848 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
61728790 GGCGGTACGA
*
61728800 TGGTGCTATGG
1 TGGTGGTATGG
61728811 TGGTGGTATGG
1 TGGTGGTATGG
* *
61728822 TGGTGATATTG
1 TGGTGGTATGG
*
61728833 TGGTTGTATGG
1 TGGTGGTATGG
61728844 TGGTG
1 TGGTG
61728849 TTTCAGTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.10, C:0.02, G:0.47, T:0.41
Consensus pattern (11 bp):
TGGTGGTATGG
Found at i:61728825 original size:22 final size:22
Alignment explanation
Indices: 61728800--61728848 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
61728790 GGCGGTACGA
*
61728800 TGGTGCTATGGTGGTGGTATGG
1 TGGTGATATGGTGGTGGTATGG
* *
61728822 TGGTGATATTGTGGTTGTATGG
1 TGGTGATATGGTGGTGGTATGG
61728844 TGGTG
1 TGGTG
61728849 TTTCAGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.02, G:0.47, T:0.41
Consensus pattern (22 bp):
TGGTGATATGGTGGTGGTATGG
Found at i:61734271 original size:40 final size:40
Alignment explanation
Indices: 61734173--61734422 Score: 324
Period size: 40 Copynumber: 6.3 Consensus size: 40
61734163 TCCTCGTTCA
* * * ** *
61734173 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
61734212 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
61734252 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
61734292 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
61734332 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * ** * *
61734372 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAACAACTCGCACG
61734412 AATGCCTTCGG
1 AATGCCTTCGG
61734423 ATCTTAGTCC
Statistics
Matches: 196, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 34 0.17
40 158 0.81
41 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:61734316 original size:80 final size:79
Alignment explanation
Indices: 61734173--61734475 Score: 349
Period size: 80 Copynumber: 3.8 Consensus size: 79
61734163 TCCTCGTTCA
* * * * *
61734173 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
61734238 TAACAACTCGCACG
66 TAACAACTCGCACG
**
61734252 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
61734317 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
61734332 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGG-A
** * *
61734397 TTT-GTATCTCGCACA
64 TTTAACAACTCGCACG
** * * * * * *
61734412 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
61734476 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 27, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
79 37 0.19
80 147 0.76
81 9 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:61734435 original size:120 final size:119
Alignment explanation
Indices: 61734171--61734475 Score: 337
Period size: 120 Copynumber: 2.5 Consensus size: 119
61734161 GCTCCTCGTT
* * ** * *
61734171 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
* *
61734236 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
66 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* *
61734290 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** * * ** *
61734355 ATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
65 ATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGG-ATTTAACAACTCGCA
* * * * * *
61734410 CAAATGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
61734473 GGA
63 GGA
61734476 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.24
120 109 0.70
121 10 0.06
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:61734484 original size:41 final size:41
Alignment explanation
Indices: 61734407--61734484 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61734397 TTTGTATCTC
* * *
61734407 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61734448 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61734485 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61737202 original size:3 final size:3
Alignment explanation
Indices: 61737194--61737233 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
61737184 AAATAGTCTA
61737194 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT
61737234 CTAAAGCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 27 0.79
4 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:61737487 original size:24 final size:22
Alignment explanation
Indices: 61737447--61737500 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
61737437 GAAATAACAA
* *
61737447 AAAATATTAATAAAAATTTAATT
1 AAAATAATAATAAAAATATAA-T
*
61737470 AAAATAATACATAGAAATATAAT
1 AAAATAATA-ATAAAAATATAAT
61737493 AATAATAA
1 AA-AATAA
61737501 AAGTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATAATAATAAAAATATAAT
Found at i:61737650 original size:15 final size:15
Alignment explanation
Indices: 61737627--61737661 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
61737617 ATATTAGTAT
*
61737627 ATAAATAGATAAATA
1 ATAATTAGATAAATA
61737642 ATAATTAGATAAATA
1 ATAATTAGATAAATA
61737657 ATAAT
1 ATAAT
61737662 AGTATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAATTAGATAAATA
Found at i:61737659 original size:26 final size:23
Alignment explanation
Indices: 61737604--61737659 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
61737594 TAAGAAAAAT
61737604 AATAAT-GAAAATAATATTAGTA
1 AATAATAGAAAATAATATTAGTA
*
61737626 TATAAATAGATAAATAATAATTAGATA
1 AAT-AATAGA-AAATAAT-ATTAG-TA
61737653 AATAATA
1 AATAATA
61737660 ATAGTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
23 3 0.11
24 2 0.07
25 7 0.26
26 9 0.33
27 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
AATAATAGAAAATAATATTAGTA
Found at i:61737681 original size:40 final size:37
Alignment explanation
Indices: 61737596--61737682 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 37
61737586 AACATATATA
*
61737596 AGAAAAATAATAATGAAAATAATATTAGTATATAAAT
1 AGAAAAATAATAATGAAAATAATAATAGTATATAAAT
*
61737633 AGATAAATAATAATTAGATAAATAATAATAGTAT-TAGAAT
1 AGAAAAATAATAA-T-GA-AAATAATAATAGTATATA-AAT
61737673 A-ACAAAATAA
1 AGA-AAAATAA
61737683 ATATAAATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
37 12 0.29
38 1 0.02
39 5 0.12
40 24 0.57
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (37 bp):
AGAAAAATAATAATGAAAATAATAATAGTATATAAAT
Found at i:61738726 original size:20 final size:21
Alignment explanation
Indices: 61738703--61738743 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61738693 ACTTTAAAAT
61738703 CAAG-TAAAAATGATTTTAAC
1 CAAGTTAAAAATGATTTTAAC
* *
61738723 CAAGTTTAAAATTATTTTAAC
1 CAAGTTAAAAATGATTTTAAC
61738744 AACTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (21 bp):
CAAGTTAAAAATGATTTTAAC
Found at i:61743208 original size:27 final size:27
Alignment explanation
Indices: 61743178--61743320 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
61743168 CCTGTAAGAT
*
61743178 AGAATTACCATTTTACCCTCGATTGAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
61743205 AGAATTACCGTTTTAACCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
61743232 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
61743259 AGAATTACCGA-CTTACCCTCGATTTAC
1 AGAATTACC-ATTTTACCCTCGATTTAC
* *
61743286 AGAATTACCATTTTACCCTCAATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
61743313 AAAATTAC
1 AGAATTAC
61743321 TGAAATACCC
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.98
28 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:61743311 original size:54 final size:54
Alignment explanation
Indices: 61743178--61743349 Score: 209
Period size: 54 Copynumber: 3.2 Consensus size: 54
61743168 CCTGTAAGAT
* ** * *
61743178 AGAATTACCATTTTACCCTCGATTGACAGAATTACCGTTTTAACCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGAATTACCCTCGATTTAC
* *
61743232 AGAATTACTATTTTACCCTCGATTTACAGAATTACCGACTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGAATTACCCTCGATTTAC
* * * * * * *
61743286 AGAATTACCATTTTACCCTCAATTTATAAAATTACTGAAATACCCTTGGTTTAC
1 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGAATTACCCTCGATTTAC
*
61743340 AAAATTACCA
1 AGAATTACCA
61743350 AAATACCCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAGAATTACCGAATTACCCTCGATTTAC
Found at i:61743330 original size:81 final size:81
Alignment explanation
Indices: 61743190--61743348 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 81
61743180 AATTACCATT
* * * **
61743190 TTACCCTCGATTGACAGAATTACCGTTTTAACCTCGATTTATAGAATTACTATTTTACCCTCGAT
1 TTACCCTCGATTGACAGAATTACCATTTTAACCTCAATTTATAAAATTACTATAATACCCTCGAT
*
61743255 TTACAGAATTACCGAC
66 TTACAAAATTACCGAC
* * * *
61743271 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAAAATTACTGA-AATACCCTTGG
1 TTACCCTCGATTGACAGAATTACCATTTTAACCTCAATTTATAAAATTACT-ATAATACCCTCGA
61743335 TTTACAAAATTACC
65 TTTACAAAATTACC
61743349 AAAATACCCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
81 66 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (81 bp):
TTACCCTCGATTGACAGAATTACCATTTTAACCTCAATTTATAAAATTACTATAATACCCTCGAT
TTACAAAATTACCGAC
Found at i:61743357 original size:54 final size:54
Alignment explanation
Indices: 61743245--61743627 Score: 159
Period size: 54 Copynumber: 6.9 Consensus size: 54
61743235 ATTACTATTT
* * * ** * ***
61743245 TACCCTCGATTTACAGAATTACCGACTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAA
* * *
61743299 TACCCTCAATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAA
* * * * ** **
61743353 TACCC-CTGGTTTGTAAAATTACTAAAATACCCCCTGATTTGTAAAATTACTGAAA
1 TACCCTC-GATTTATAAAATTACTGAAATACCCTC-GATTTACAAAATTACCAAAA
* * ** * ** **
61743408 TACCCTTGACTTGTAAAATTACCAAAGTACCCAAATATCCTCGATTTGTAAAATTACTGAAA
1 TACCCTCGA-TT-T---A-TA--AAATTACTGAAATACCCTCGATTTACAAAATTACCAAAA
* ** **
61743470 CACCCTC-AGTTTGA-AAAATTACTGAAATACCCTCGATTTTGTAAAATTACTGAAA
1 TACCCTCGA-TTT-ATAAAATTACTGAAATACCCTCGA-TTTACAAAATTACCAAAA
** * * ** * *
61743525 TACTCCT-G-TAAGATAGAATTAC-CATTTTACCCTCGATTGACAAAATTACCAAAG
1 TAC-CCTCGAT-TTATAAAATTACTGA-AATACCCTCGATTTACAAAATTACCAAAA
** *
61743579 TACCCTCGATTTATAAAATTACT-ATTTTACCCTCGATTTACAGAATTAC
1 TACCCTCGATTTATAAAATTACTGA-AATACCCTCGATTTACAAAATTAC
61743628 TATTTTACCC
Statistics
Matches: 252, Mismatches: 57, Indels: 40
0.72 0.16 0.11
Matches are distributed among these distances:
53 4 0.02
54 137 0.54
55 58 0.23
56 6 0.02
57 1 0.00
58 1 0.00
60 1 0.00
61 5 0.02
62 25 0.10
63 14 0.06
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAA
Found at i:61743395 original size:28 final size:28
Alignment explanation
Indices: 61743307--61743527 Score: 166
Period size: 27 Copynumber: 7.8 Consensus size: 28
61743297 TTTACCCTCA
* *
61743307 ATTTATAAAATTACTGAAATA-CCCTTG
1 ATTTGTAAAATTACTGAAATACCCCCTG
* ** **
61743334 GTTTACAAAATTACCAAAATA-CCCCTG
1 ATTTGTAAAATTACTGAAATACCCCCTG
* *
61743361 GTTTGTAAAATTACTAAAATACCCCCTG
1 ATTTGTAAAATTACTGAAATACCCCCTG
*
61743389 ATTTGTAAAATTACTGAAATA-CCCTTG
1 ATTTGTAAAATTACTGAAATACCCCCTG
* *
61743416 ACTTGTAAAATTAC-CAAAGTACCCAAATATCCTCG
1 ATTTGTAAAATTACTGAAA-TACCC------CCT-G
* * *
61743451 ATTTGTAAAATTACTGAAACACCCTCAG
1 ATTTGTAAAATTACTGAAATACCCCCTG
* *
61743479 -TTTGAAAAATTACTGAAATACCCTC-G
1 ATTTGTAAAATTACTGAAATACCCCCTG
61743505 ATTTTGTAAAATTACTGAAATAC
1 A-TTTGTAAAATTACTGAAATAC
61743528 TCCTGTAAGA
Statistics
Matches: 159, Mismatches: 22, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
26 4 0.03
27 83 0.52
28 48 0.30
29 1 0.01
34 2 0.01
35 18 0.11
36 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (28 bp):
ATTTGTAAAATTACTGAAATACCCCCTG
Found at i:61743545 original size:55 final size:53
Alignment explanation
Indices: 61743440--61743546 Score: 126
Period size: 55 Copynumber: 2.0 Consensus size: 53
61743430 CAAAGTACCC
* **
61743440 AAATATCCTCGATTTGTAAAATTACTGAAACACCCTCAGTTTGAAAAATTACTG
1 AAATACCCTCGATTTGTAAAATTACTGAAACACCCT-AGTAAGAAAAATTACTG
* *
61743494 AAATACCCTCGATTTTGTAAAATTACTGAAATACTCCT-GTAAGATAGAATTAC
1 AAATACCCTCGA-TTTGTAAAATTACTGAAACAC-CCTAGTAAGA-AAAATTAC
61743547 CATTTTACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
54 15 0.33
55 27 0.60
56 3 0.07
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (53 bp):
AAATACCCTCGATTTGTAAAATTACTGAAACACCCTAGTAAGAAAAATTACTG
Found at i:61743571 original size:27 final size:27
Alignment explanation
Indices: 61743541--61743670 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
61743531 TGTAAGATAG
*
61743541 AATTACCATTTTACCCTCGATTGACAA
1 AATTACCATTTTACCCTCGATTTACAA
*** *
61743568 AATTACCAAAGTACCCTCGATTTATAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
61743595 AATTACTATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
61743622 AATTACTATTTTACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
61743649 AATTATCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
61743671 GTGAAATTAC
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:61743732 original size:27 final size:27
Alignment explanation
Indices: 61743702--61743847 Score: 134
Period size: 27 Copynumber: 5.4 Consensus size: 27
61743692 TATAGGGTAG
*
61743702 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
61743729 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
61743756 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
61743783 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
61743810 AATTACAAAAATA-CCCTTGATTTGTAG
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
61743837 ATTTACCAAAA
1 AATTACCAAAA
61743848 CACCTTTGTA
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
26 7 0.07
27 83 0.88
28 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:61743770 original size:81 final size:81
Alignment explanation
Indices: 61743669--61743824 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
61743659 TTACCCTCGA
* * * **
61743669 TTGTGAAATTACTGAAATACCC-CTATAGGGTAGAATTACCAAAACACCCCTAGTTTGTAAAATT
1 TTGTGAAATTACTGAAATACCCTCAAT-GGGTAAAATTACCAAAACACCCCTAATTTACAAAATT
*
61743733 ACCAAAATACCACTGGT
65 ACAAAAATACCACTGGT
** *
61743750 TTGTGAAATTA-TCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATT
1 TTGTGAAATTACT-GAAATACCCTCAATGGGTAAAATTACCAAAACACCCCTAATTTACAAAATT
61743814 ACAAAAATACC
65 ACAAAAATACC
61743825 CTTGATTTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.94
82 3 0.05
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCTCAATGGGTAAAATTACCAAAACACCCCTAATTTACAAAATTA
CAAAAATACCACTGGT
Found at i:61743834 original size:81 final size:81
Alignment explanation
Indices: 61743660--61743834 Score: 196
Period size: 81 Copynumber: 2.2 Consensus size: 81
61743650 ATTATCGTTT
* * * *
61743660 TACCCTCGA-TTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACCAAAACACCCCTAGTT
1 TACCCTTGATTTGTGAAATTACTGAAATACCCCAATAGGGTAAAATTACCAAAACACCCCTAATT
** *
61743724 TGTAAAATTACCAAAA
66 TACAAAATTACAAAAA
* ** *
61743740 TACCAC-TGGTTTGTGAAATTA-TCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCTA
1 TACC-CTTGATTTGTGAAATTACT-GAAATACCC-CAATAGGGTAAAATTACCAAAACACCCCTA
61743802 ATTTACAAAATTACAAAAA
63 ATTTACAAAATTACAAAAA
61743821 TACCCTTGATTTGT
1 TACCCTTGATTTGT
61743835 AGATTTACCA
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
80 7 0.09
81 68 0.87
82 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
TACCCTTGATTTGTGAAATTACTGAAATACCCCAATAGGGTAAAATTACCAAAACACCCCTAATT
TACAAAATTACAAAAA
Found at i:61761352 original size:11 final size:11
Alignment explanation
Indices: 61761333--61761387 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61761323 CATGGTATGT
61761333 ATGATATGCAC
1 ATGATATGCAC
*
61761344 ATGACATG--C
1 ATGATATGCAC
61761353 ATGATATGCAC
1 ATGATATGCAC
* *
61761364 ATGATCTG--T
1 ATGATATGCAC
61761373 ATGATATGCAC
1 ATGATATGCAC
61761384 ATGA
1 ATGA
61761388 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61761356 original size:20 final size:20
Alignment explanation
Indices: 61761333--61761387 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
61761323 CATGGTATGT
61761333 ATGATATGCACATGA-CATGC
1 ATGATATGCACATGATC-TGC
*
61761353 ATGATATGCACATGATCTGT
1 ATGATATGCACATGATCTGC
61761373 ATGATATGCACATGA
1 ATGATATGCACATGA
61761388 GGTATTCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
ATGATATGCACATGATCTGC
Found at i:61761521 original size:24 final size:24
Alignment explanation
Indices: 61761437--61761568 Score: 194
Period size: 25 Copynumber: 5.4 Consensus size: 24
61761427 GGAGGAAGTG
61761437 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
61761461 GATAAAGGGCTTATGCCCCAATTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
61761486 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
61761511 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
61761535 TAAAAGGGCTT-TGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
61761558 TAAAAGAGGCT
1 TAAAAG-GGCT
61761569 AGGCCTCTAG
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
23 17 0.17
24 38 0.38
25 46 0.46
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:61768995 original size:25 final size:25
Alignment explanation
Indices: 61768962--61769009 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61768952 TTATAATATG
* * *
61768962 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61768987 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61769010 GGGTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61769076 original size:11 final size:11
Alignment explanation
Indices: 61769057--61769111 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
61769047 CATGGTATGA
61769057 ATGATATGCAC
1 ATGATATGCAC
*
61769068 ATGACATG--C
1 ATGATATGCAC
61769077 ATGATATGCAC
1 ATGATATGCAC
*
61769088 ATGATATG--T
1 ATGATATGCAC
61769097 ATGATATGCAC
1 ATGATATGCAC
61769108 ATGA
1 ATGA
61769112 GGTATTCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61769080 original size:20 final size:20
Alignment explanation
Indices: 61769057--61769111 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
61769047 CATGGTATGA
61769057 ATGATATGCACATGACATGC
1 ATGATATGCACATGACATGC
* *
61769077 ATGATATGCACATGATATGT
1 ATGATATGCACATGACATGC
61769097 ATGATATGCACATGA
1 ATGATATGCACATGA
61769112 GGTATTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (20 bp):
ATGATATGCACATGACATGC
Found at i:61769220 original size:24 final size:24
Alignment explanation
Indices: 61769161--61769281 Score: 156
Period size: 24 Copynumber: 5.0 Consensus size: 24
61769151 GGAGGAAGTG
61769161 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
61769185 GATAAAGGGTTTATGCCTCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
61769210 TAAAAGGGTTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
61769234 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
61769257 TAAAAGAGGC-TAAGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
61769282 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.22
24 38 0.44
25 29 0.34
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:61769223 original size:49 final size:47
Alignment explanation
Indices: 61769161--61769281 Score: 154
Period size: 49 Copynumber: 2.5 Consensus size: 47
61769151 GGAGGAAGTG
* *
61769161 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGTTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGA-AAAGGGCTT-TGCCCCAGTTAT
* *
61769210 TAAAAGGGTTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
*
61769257 TAAAAGAGGC-TAAGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
61769282 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
47 22 0.34
48 18 0.28
49 24 0.38
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTAT
Found at i:61769510 original size:31 final size:31
Alignment explanation
Indices: 61769475--61769537 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
61769465 CGTTTACAGT
61769475 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
61769506 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61769537 A
1 A
61769538 GTTATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61775937 original size:512 final size:513
Alignment explanation
Indices: 61775291--61776317 Score: 2020
Period size: 512 Copynumber: 2.0 Consensus size: 513
61775281 TGTCCTATCC
61775291 AATTCCGAATGGTTCATTGGGCAACGATTATTGTGATCAAATGAGTAAAATGAGCTAAATAGCCA
1 AATTCCGAATGGTTCATTGGGCAACGATTATTGTGATCAAATGAGTAAAATGAGCTAAATAGCCA
61775356 GGTATGAACTAGCTTGTTACTTATTTGAATTAAGGTAAGTGAGTAACTTGATTATTTGTTACAAA
66 GGTATGAACTAGCTTGTTACTTATTTGAATTAAGGTAAGTGAGTAACTTGATTATTTGTTACAAA
61775421 TTGCATTTGACGTAAATGAAAGACATATGTGATTATAGTATGTATATTCGGCCAAATAAGTAATA
131 TTGCATTTGACGTAAATGAAAGACATATGTGATTATAGTATGTATATTCGGCCAAATAAGTAATA
61775486 TATGTACAAGATGTTATATTATGATTCTTGAGTTTGTGTATTTGAGCATATGTATATTTGGTCAT
196 TATGTACAAGATGTTATATTATGATTCTTGAGTTTGTGTATTTGAGCATATGTATATTTGGTCAT
61775551 TTAATGACATTTTGACTATGAAAATTGAATAACATTTGGTAAATTTTGATTACTTGAGCATTCGG
261 TTAATGACATTTTGACTATGAAAATTGAATAACATTTGGTAAATTTTGATTACTTGAGCATTCGG
61775616 TCAATATGGAAAATTGAGTATAAAATGTATTATATATATATATATATATGAAATTATAGTTTGAG
326 TCAATATGGAAAATTGAGTATAAAATGTATTATATATATATATATATATGAAATTATAGTTTGAG
61775681 ACTAAGGAATGAGAATGTTAATATAATTTGATTAGCTTAAAATGAATTG-ATATATATTTGGATT
391 ACTAAGGAATGAGAATGTTAATATAATTTGATTAGCTTAAAATGAATTGAATATATATTTGGATT
*
61775745 TTTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATTTGTGTTT
456 GTTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATTTGTGTTT
61775803 AATTCCGAATGGTTCATTGGGCAACGATTATTGTGATCAAATGAGTAAAATGAGCTAAATAGCCA
1 AATTCCGAATGGTTCATTGGGCAACGATTATTGTGATCAAATGAGTAAAATGAGCTAAATAGCCA
61775868 GGTATGAACTAGCTTGTTACTTATTTGAATTAAGGTAAGTGAGTAACTTGATTATTTGTTACAAA
66 GGTATGAACTAGCTTGTTACTTATTTGAATTAAGGTAAGTGAGTAACTTGATTATTTGTTACAAA
61775933 TTGCATTTGACGTAAATGAAAGACATATGTGATTATAGTATGTATATTCGGCCAAATAAGTAATA
131 TTGCATTTGACGTAAATGAAAGACATATGTGATTATAGTATGTATATTCGGCCAAATAAGTAATA
61775998 TATGTACAAGATGTTATATTATGATTCTTGAGTTTGTGTATTTGAGCATATGTATATTTGGTCAT
196 TATGTACAAGATGTTATATTATGATTCTTGAGTTTGTGTATTTGAGCATATGTATATTTGGTCAT
61776063 TTAATGACATTTTGACTATGAAAATTGAATAACATTTGGTAAATTTTGATTACTTGAGCATTCGG
261 TTAATGACATTTTGACTATGAAAATTGAATAACATTTGGTAAATTTTGATTACTTGAGCATTCGG
61776128 TCAATATGGAAAATTGAGTATAAAATGTATTATATATATATATATATATGAAATTATAGTTTGAG
326 TCAATATGGAAAATTGAGTATAAAATGTATTATATATATATATATATATGAAATTATAGTTTGAG
*
61776193 ACTAAGGAATGAGAATGTTAATATAATTTGATTAGCTTAAAATGAATTGATATATATATTTGGGT
391 ACTAAGGAATGAGAATGTTAATATAATTTGATTAGCTTAAAATGAATTGA-ATATATATTTGGAT
61776258 TGTTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATTTGTGTTT
455 TGTTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATTTGTGTTT
61776317 A
1 A
61776318 TGTTTTATAG
Statistics
Matches: 511, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
512 439 0.86
514 72 0.14
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (513 bp):
AATTCCGAATGGTTCATTGGGCAACGATTATTGTGATCAAATGAGTAAAATGAGCTAAATAGCCA
GGTATGAACTAGCTTGTTACTTATTTGAATTAAGGTAAGTGAGTAACTTGATTATTTGTTACAAA
TTGCATTTGACGTAAATGAAAGACATATGTGATTATAGTATGTATATTCGGCCAAATAAGTAATA
TATGTACAAGATGTTATATTATGATTCTTGAGTTTGTGTATTTGAGCATATGTATATTTGGTCAT
TTAATGACATTTTGACTATGAAAATTGAATAACATTTGGTAAATTTTGATTACTTGAGCATTCGG
TCAATATGGAAAATTGAGTATAAAATGTATTATATATATATATATATATGAAATTATAGTTTGAG
ACTAAGGAATGAGAATGTTAATATAATTTGATTAGCTTAAAATGAATTGAATATATATTTGGATT
GTTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTACTCTGTGTATATTTGTGTTT
Found at i:61776497 original size:17 final size:17
Alignment explanation
Indices: 61776475--61776508 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61776465 TGTATTTAAA
61776475 GCCATGCGAAAATGGCT
1 GCCATGCGAAAATGGCT
61776492 GCCATGCGAAAATGGCT
1 GCCATGCGAAAATGGCT
61776509 TCTATTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (17 bp):
GCCATGCGAAAATGGCT
Found at i:61784049 original size:55 final size:57
Alignment explanation
Indices: 61783964--61784072 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 57
61783954 ATTCCGATTT
* * *
61783964 TGATATGTGATGTGCGAGTAAGACCATGTTT-ATAC-GTTGGCATCGATATGTGACTC
1 TGATATATGATGTGCGACTAAGACCATGTTTGAGACAG-TGGCATCGATATGTGACTC
* *
61784020 TGATATATG-TGTGCGACTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGA
1 TGATATATGATGTGCGACTAAGACCATGTTTGAGACAGTGGCATCGATATGTGA
61784073 TTACATGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 19 0.41
56 26 0.57
57 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (57 bp):
TGATATATGATGTGCGACTAAGACCATGTTTGAGACAGTGGCATCGATATGTGACTC
Found at i:61786008 original size:17 final size:17
Alignment explanation
Indices: 61785969--61786010 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
61785959 TTATTATAAG
* *
61785969 TATT-TATTTAAATGTG
1 TATTATATTTAAAAGTA
61785985 T-TTATATTTAAAAGTA
1 TATTATATTTAAAAGTA
61786001 TATTATATTT
1 TATTATATTT
61786011 GACGTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 8 0.36
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TATTATATTTAAAAGTA
Found at i:61790942 original size:35 final size:35
Alignment explanation
Indices: 61790903--61790971 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
61790893 AGTTAATAAA
*
61790903 TAAAGCTCACCATTCATTCATAATTCAAGTAGTAG
1 TAAAGCTCACCATTCATTCAAAATTCAAGTAGTAG
61790938 TAAAGCTCACCATTCATTCAAAATTCAAGTAGTA
1 TAAAGCTCACCATTCATTCAAAATTCAAGTAGTA
61790972 TGAACATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (35 bp):
TAAAGCTCACCATTCATTCAAAATTCAAGTAGTAG
Found at i:61795644 original size:54 final size:53
Alignment explanation
Indices: 61795516--61795649 Score: 146
Period size: 54 Copynumber: 2.5 Consensus size: 53
61795506 CAACAGTAGA
* *
61795516 TGTGCCCATATGCGAGTTGTAGTC-A-ATCTGCAAGCTATGCTAATGTGCATT
1 TGTGCCCATATGCGAGTTGTAGTCAATATATGCAAGCTATGCTAATATGCATT
** * ** * * *
61795567 TGTGCCTTTCTATGAGTTGTAGTCAATATATGCGAGCTATGCTATTATGCGTGT
1 TGTGCCCATATGCGAGTTGTAGTCAATATATGCAAGCTATGCTAATATGCAT-T
*
61795621 TGTGCCCATATGCGAGCTGTAGTCAATAT
1 TGTGCCCATATGCGAGTTGTAGTCAATAT
61795650 GTAAACTATG
Statistics
Matches: 64, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
51 19 0.30
52 1 0.02
53 20 0.31
54 24 0.38
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (53 bp):
TGTGCCCATATGCGAGTTGTAGTCAATATATGCAAGCTATGCTAATATGCATT
Found at i:61797583 original size:42 final size:42
Alignment explanation
Indices: 61797463--61797659 Score: 236
Period size: 43 Copynumber: 4.6 Consensus size: 42
61797453 TACCATACCA
**
61797463 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
61797505 ATGCTAATAGT-CCAGCTGTGGTCTTACATGAAATCTCATATTG
1 ATGC-CATA-TCCCAGATATGGTCTTACATGAAATCTCATATCG
**
61797548 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
61797590 ATGCTAATAGT-CCAGCTGTGGTCTTACATGAAATCTCATATTG
1 ATGC-CATA-TCCCAGATATGGTCTTACATGAAATCTCATATCG
61797633 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
61797660 CGTACTCTCA
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.02
42 56 0.44
43 68 0.53
44 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:61797669 original size:85 final size:85
Alignment explanation
Indices: 61797463--61797659 Score: 394
Period size: 85 Copynumber: 2.3 Consensus size: 85
61797453 TACCATACCA
61797463 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCTAATAGTCCAGCTGTGGTC
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCTAATAGTCCAGCTGTGGTC
61797528 TTACATGAAATCTCATATTG
66 TTACATGAAATCTCATATTG
61797548 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCTAATAGTCCAGCTGTGGTC
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCTAATAGTCCAGCTGTGGTC
61797613 TTACATGAAATCTCATATTG
66 TTACATGAAATCTCATATTG
61797633 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
61797660 CGTACTCTCA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCTAATAGTCCAGCTGTGGTC
TTACATGAAATCTCATATTG
Found at i:61808110 original size:88 final size:88
Alignment explanation
Indices: 61807940--61808103 Score: 231
Period size: 88 Copynumber: 1.9 Consensus size: 88
61807930 TATGGTGGAA
* * * * * * *
61807940 TTTTTGTAGAATTTTTGGTTGGTCCAATTGGTACAGTTTATTAGTTAAACTCGTCCCTGTTCCTG
1 TTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAACTCGTCCCTGTTACAG
*
61808005 GGTTCGACTACTCTGACCGCATT
66 GGATCGACTACTCTGACCGCATT
*
61808028 TTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAAGTC-TCCCATGTTACA
1 TTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAACTCGTCCC-TGTTACA
61808092 GGGATCGACTAC
65 GGGATCGACTAC
61808104 ATTGACCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 4 0.06
88 62 0.94
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (88 bp):
TTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTCAAACTCGTCCCTGTTACAG
GGATCGACTACTCTGACCGCATT
Found at i:61808493 original size:109 final size:109
Alignment explanation
Indices: 61808302--61808508 Score: 301
Period size: 109 Copynumber: 1.9 Consensus size: 109
61808292 AGAGTTTAAT
* * *
61808302 TATCTCCTAACATACAGCTCATATGGTCGTTTTGTTTCTTCTATATGAAAGTAGACTCATCGAGC
1 TATCTCCTAACATACAGCTCATATGATCGTTTTGTTGCTTCTATATGAAAATAGACTCATCGAGC
* *
61808367 TTCGATTACATAATTTATTCATTAATTAATTCCGAGAACCTGAA
66 TTCGAATACATAATTTATTCATCAATTAATTCCGAGAACCTGAA
* * * *
61808411 TATCTCTTAACATACTG-TCCATATGATC-TTTTCGTTGCTTCTATCTGAAAATAGACTGATCGA
1 TATCTCCTAACATACAGCT-CATATGATCGTTTT-GTTGCTTCTATATGAAAATAGACTCATCGA
61808474 GCTTCGAATACATAATTTATTCATCAATTAATTCC
64 GCTTCGAATACATAATTTATTCATCAATTAATTCC
61808509 ACTCCTACTA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
108 5 0.06
109 82 0.94
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (109 bp):
TATCTCCTAACATACAGCTCATATGATCGTTTTGTTGCTTCTATATGAAAATAGACTCATCGAGC
TTCGAATACATAATTTATTCATCAATTAATTCCGAGAACCTGAA
Found at i:61809365 original size:55 final size:54
Alignment explanation
Indices: 61809281--61809456 Score: 289
Period size: 55 Copynumber: 3.2 Consensus size: 54
61809271 ATATTAAGTC
* * * * *
61809281 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATT
61809336 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
61809390 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAATT
61809445 CGCACACTTAGT
1 CGCACACTTAGT
61809457 CCTGCACAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 26 0.23
55 89 0.77
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
Found at i:61809418 original size:82 final size:82
Alignment explanation
Indices: 61809281--61809456 Score: 298
Period size: 82 Copynumber: 2.1 Consensus size: 82
61809271 ATATTAAGTC
* *
61809281 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
61809346 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* * *
61809363 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
61809428 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
61809445 CGCACACTTAGT
1 CGCACACTTAGT
61809457 CCTGCACAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 88 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:61809455 original size:27 final size:27
Alignment explanation
Indices: 61809281--61809456 Score: 280
Period size: 27 Copynumber: 6.4 Consensus size: 27
61809271 ATATTAAGTC
* * *
61809281 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
61809308 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
61809336 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
61809363 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
61809390 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
61809418 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
61809445 CGCACACTTAGT
1 CGCACACTTAGT
61809457 CCTGCACAAT
Statistics
Matches: 141, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 89 0.63
28 52 0.37
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61816503 original size:26 final size:26
Alignment explanation
Indices: 61816457--61816509 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
61816447 TCAAACATGC
*
61816457 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGAGGT
* *
61816483 ATTTCGGT-AATTTATCTCCTAGAGGT
1 ATTTAGGTCAATTTAAC-CCTAGAGGT
61816509 A
1 A
61816510 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGAGGT
Found at i:61817868 original size:11 final size:11
Alignment explanation
Indices: 61817852--61817880 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
61817842 CGGCTATGAA
61817852 GAACAAAGAAT
1 GAACAAAGAAT
61817863 GAACAAAGAAT
1 GAACAAAGAAT
61817874 GAACAAA
1 GAACAAA
61817881 AACCTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.66, C:0.10, G:0.17, T:0.07
Consensus pattern (11 bp):
GAACAAAGAAT
Found at i:61821585 original size:18 final size:20
Alignment explanation
Indices: 61821551--61821601 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
61821541 AAAAATAAAA
*
61821551 TAAAA-TCACAATAATTT-T
1 TAAAATTCAAAATAATTTAT
61821569 TAAAATTCAAAAT-ATTTAT
1 TAAAATTCAAAATAATTTAT
*
61821588 AAAAATTTCAAAAT
1 TAAAA-TTCAAAAT
61821602 TTATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.32
19 11 0.39
20 8 0.29
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTCAAAATAATTTAT
Found at i:61821603 original size:18 final size:18
Alignment explanation
Indices: 61821582--61821636 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
61821572 AATTCAAAAT
61821582 ATTTATAAAAATTTCAAA
1 ATTTATAAAAATTTCAAA
**** *
61821600 ATTTATATTTTTTTTAAA
1 ATTTATAAAAATTTCAAA
*
61821618 AATTATAAAAATTTCAAA
1 ATTTATAAAAATTTCAAA
61821636 A
1 A
61821637 CAATTCTAAA
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTATAAAAATTTCAAA
Found at i:61821881 original size:22 final size:22
Alignment explanation
Indices: 61821838--61821883 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
61821828 TGTAACAAGA
***
61821838 TTTTAATTTGACATGTTTAATT
1 TTTTAATTTGACATGAACAATT
*
61821860 TTTTAATTTGACTTGAACAATT
1 TTTTAATTTGACATGAACAATT
61821882 TT
1 TT
61821884 AGTCGATTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (22 bp):
TTTTAATTTGACATGAACAATT
Found at i:61827365 original size:34 final size:34
Alignment explanation
Indices: 61827326--61827393 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
61827316 TAAATGGTGT
61827326 AACCATCGAGATTGTATTGAATGAGATATATGCA
1 AACCATCGAGATTGTATTGAATGAGATATATGCA
61827360 AACCATCGAGATTGTATTGAATGAGATATATGCA
1 AACCATCGAGATTGTATTGAATGAGATATATGCA
61827394 TTTTAGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (34 bp):
AACCATCGAGATTGTATTGAATGAGATATATGCA
Found at i:61829596 original size:42 final size:43
Alignment explanation
Indices: 61829496--61829597 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
61829486 AGTTCGTACA
** * * *
61829496 ATGCCAACGTCCCAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGAAATCAAATATCG
61829539 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGAAATCAAATATCG
61829581 ATGCCAACGTCCCAGAC
1 ATGCCAACGTCCCAGAC
61829598 GTGATCTTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 18 0.35
43 34 0.65
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGAAATCAAATATCG
Found at i:61849675 original size:58 final size:58
Alignment explanation
Indices: 61849604--61849722 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
61849594 ATATGTATAC
*
61849604 ATGTGTATATAGGTTGTGAAATAGATAGGAGGAGAAGGAAAATAGTATAAGAGTTGTA
1 ATGTGTATATAGGTTGTGAAATAGAGAGGAGGAGAAGGAAAATAGTATAAGAGTTGTA
*
61849662 ATGTGTATATAGGTTGTGAAATGGAGAGGAGGAGAAGGAAAATAGTATAAGAGTTGTA
1 ATGTGTATATAGGTTGTGAAATAGAGAGGAGGAGAAGGAAAATAGTATAAGAGTTGTA
61849720 ATG
1 ATG
61849723 CTAAGAAGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (58 bp):
ATGTGTATATAGGTTGTGAAATAGAGAGGAGGAGAAGGAAAATAGTATAAGAGTTGTA
Found at i:61850187 original size:5 final size:5
Alignment explanation
Indices: 61850177--61850203 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
61850167 AAGAAAATAT
61850177 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
61850204 ATTAAAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:61850349 original size:5 final size:5
Alignment explanation
Indices: 61850339--61850368 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
61850329 AAGTAAAATA
61850339 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
61850369 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:61850375 original size:3 final size:3
Alignment explanation
Indices: 61850367--61850391 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61850357 ATTATATTAT
61850367 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
61850392 AACATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61850473 original size:14 final size:13
Alignment explanation
Indices: 61850438--61850480 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
61850428 GAAACAGGGG
61850438 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
*
61850451 AAATAAAAGAAAGAA
1 AAA-GAAAG-AAGAA
*
61850466 AAAGAAAGGAGAA
1 AAAGAAAGAAGAA
61850479 AA
1 AA
61850481 TTTAGGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 9 0.36
14 8 0.32
15 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:61851231 original size:13 final size:14
Alignment explanation
Indices: 61851213--61851245 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
61851203 GATTTTAATT
61851213 GAAATTG-AATTGA
1 GAAATTGAAATTGA
61851226 GAAATTGAAATTGA
1 GAAATTGAAATTGA
61851240 -AAATTG
1 GAAATTG
61851246 TATTAACCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (14 bp):
GAAATTGAAATTGA
Found at i:61851628 original size:18 final size:18
Alignment explanation
Indices: 61851605--61851642 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61851595 AATATATATT
61851605 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
61851623 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
61851641 AA
1 AA
61851643 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:61851635 original size:13 final size:13
Alignment explanation
Indices: 61851619--61851643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61851609 CAAGTACCCA
61851619 ACCCAACCCAATT
1 ACCCAACCCAATT
61851632 ACCCAACCCAAT
1 ACCCAACCCAAT
61851644 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:61851709 original size:7 final size:6
Alignment explanation
Indices: 61851668--61851708 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
61851658 ATAATTTAAT
*
61851668 AAATAA AAATAA AAATGTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
61851709 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:61851709 original size:20 final size:20
Alignment explanation
Indices: 61851671--61851710 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61851661 ATTTAATAAA
**
61851671 TAAAAATAAAAATGTAAAAC
1 TAAAAATAAAAATAAAAAAC
61851691 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
61851711 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:61851742 original size:9 final size:9
Alignment explanation
Indices: 61851728--61851804 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
61851718 TTTATACAAA
61851728 TAATTCGGT
1 TAATTCGGT
61851737 TAATTCGGT
1 TAATTCGGT
* *
61851746 TAATTTGGG
1 TAATTCGGT
*
61851755 TAATTCGGG
1 TAATTCGGT
* *
61851764 TAATCCGGG
1 TAATTCGGT
61851773 TAATTCGGT
1 TAATTCGGT
*
61851782 TAATTCGAT
1 TAATTCGGT
*
61851791 TAATCCGGT
1 TAATTCGGT
61851800 TAATT
1 TAATT
61851805 TTATACTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (9 bp):
TAATTCGGT
Found at i:61851767 original size:27 final size:27
Alignment explanation
Indices: 61851728--61851805 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
61851718 TTTATACAAA
*
61851728 TAATTCGGTTAATTCGGTTAATTTGGG
1 TAATTCGGTTAATCCGGTTAATTTGGG
* * * *
61851755 TAATTCGGGTAATCCGGGTAATTCGGT
1 TAATTCGGTTAATCCGGTTAATTTGGG
*
61851782 TAATTCGATTAATCCGGTTAATTT
1 TAATTCGGTTAATCCGGTTAATTT
61851806 TATACTTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (27 bp):
TAATTCGGTTAATCCGGTTAATTTGGG
Found at i:61852268 original size:16 final size:15
Alignment explanation
Indices: 61852217--61852269 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
61852207 GTTATATACT
61852217 CATGAATTGAGTATGG
1 CATGAATTGAGTAT-G
* * *
61852233 TATGAAATGATGTATT
1 CATGAATTGA-GTATG
61852249 CATGAATTGAGTACTG
1 CATGAATTGAGTA-TG
61852265 CATGA
1 CATGA
61852270 CTGATGCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (15 bp):
CATGAATTGAGTATG
Found at i:61853966 original size:67 final size:68
Alignment explanation
Indices: 61853848--61854009 Score: 186
Period size: 67 Copynumber: 2.4 Consensus size: 68
61853838 ACAAGCCTCG
* *
61853848 CAATTCCCATGAAAAAATGGCACTCTTGTGAAGCTTGTGAATGAAAAGTT-AATGGCAAAATTCT
1 CAATTCCCATGAAAAAATGGCACTCTTGAGAAGCTTGTCAATGAAAAGTTAAATGGCAAAATTCT
*
61853912 TAA
66 CAA
* * * * **
61853915 TAATTCCCATGACAAAATGGCACTCTTGCAG-GGCTTGTCAAT-AAAACGTTAAATGGTATGATT
1 CAATTCCCATGAAAAAATGGCACTCTTG-AGAAGCTTGTCAATGAAAA-GTTAAATGGCAAAATT
61853978 CTCAA
64 CTCAA
**
61853983 CAATTTTCATGAAAAAATGGCACTCTT
1 CAATTCCCATGAAAAAATGGCACTCTT
61854010 ATGAGACTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
66 4 0.05
67 38 0.48
68 37 0.47
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (68 bp):
CAATTCCCATGAAAAAATGGCACTCTTGAGAAGCTTGTCAATGAAAAGTTAAATGGCAAAATTCT
CAA
Found at i:61854006 original size:68 final size:67
Alignment explanation
Indices: 61853848--61854039 Score: 187
Period size: 68 Copynumber: 2.9 Consensus size: 67
61853838 ACAAGCCTCG
* * *
61853848 CAATTCCCATGAAAAAATGGCACTCTTGTGAAGCTTGTGAATGAAAAGTTAATGGCAAAATTCTT
1 CAATTCCCATGAAAAAATGGCACTCTTGAGAAGCTTGTCAATGAAAAGTTAATGGCAAAATTCTC
61853913 AA
66 AA
* * * * **
61853915 TAATTCCCATGACAAAATGGCACTCTTGCAG-GGCTTGTCAAT-AAAACGTTAAATGGTATGATT
1 CAATTCCCATGAAAAAATGGCACTCTTG-AGAAGCTTGTCAATGAAAA-GTT-AATGGCAAAATT
61853978 CTCAA
63 CTCAA
** *
61853983 CAATTTTCATGAAAAAATGGCACTCTT-ATG-AGACTTGTGAAT-AACAAGTTAATGGCA
1 CAATTCCCATGAAAAAATGGCACTCTTGA-GAAG-CTTGTCAATGAA-AAGTTAATGGCA
61854040 CAGTTCCCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
66 5 0.05
67 46 0.45
68 50 0.49
69 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (67 bp):
CAATTCCCATGAAAAAATGGCACTCTTGAGAAGCTTGTCAATGAAAAGTTAATGGCAAAATTCTC
AA
Found at i:61863059 original size:25 final size:25
Alignment explanation
Indices: 61863031--61863080 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
61863021 CTAAAGTTAA
*
61863031 TTAGAAATGTAAGACGCATAAGCTC
1 TTAGAAATGTAAGAAGCATAAGCTC
61863056 TTAGAAATGTAAGAAGCATAAGCTC
1 TTAGAAATGTAAGAAGCATAAGCTC
61863081 CATGTATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (25 bp):
TTAGAAATGTAAGAAGCATAAGCTC
Found at i:61863941 original size:24 final size:24
Alignment explanation
Indices: 61863909--61863957 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61863899 ACCCAGAGTA
61863909 CGTTACAAAATTTTATTCTTTAAT
1 CGTTACAAAATTTTATTCTTTAAT
61863933 CGTTACAAAATTTTATTCTTTAAT
1 CGTTACAAAATTTTATTCTTTAAT
61863957 C
1 C
61863958 ATGATCATTC
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:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (24 bp):
CGTTACAAAATTTTATTCTTTAAT
Found at i:61872169 original size:30 final size:30
Alignment explanation
Indices: 61872135--61872195 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
61872125 TCCTTAACTC
61872135 AAACTTTTG-AGAAATTACAATTTTGCCCCT
1 AAACTTTTGCA-AAATTACAATTTTGCCCCT
* * *
61872165 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
61872195 A
1 A
61872196 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:61875183 original size:46 final size:47
Alignment explanation
Indices: 61875042--61875258 Score: 185
Period size: 46 Copynumber: 4.6 Consensus size: 47
61875032 AGGCTAACAA
* * * * *
61875042 CATGTCCCAGACATGGTCTTACATTAGCTCTCACATATCTG-TGCTAATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTC-GATACTGATG
* * * * *
61875091 CCATGGCCTAGACATGGTCTTACATTGAC--ACATCTCG-TAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGATA-CTGATG
*
61875137 CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGATACTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGATACTGATG
* * * * * *
61875183 CATGCCCCAGACAT-GTCTTACACTAGCTTTCGTCTCAATGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGATACTGATG
61875229 CCATGTCCCAGACATGGTCTTACACTGGCT
1 -CATGTCCCAGACATGGTCTTACACTGGCT
61875259 CACAAATAAC
Statistics
Matches: 140, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 62 0.44
47 15 0.11
48 13 0.09
50 24 0.17
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGATACTGATG
Found at i:61893780 original size:40 final size:40
Alignment explanation
Indices: 61893736--61893959 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
61893726 AAGTGAATAT
* * * * **
61893736 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
61893776 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
61893816 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
61893856 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
61893896 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
61893935 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
61893960 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:61893834 original size:80 final size:80
Alignment explanation
Indices: 61893697--61893959 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
61893687 TTGAATGCTG
* * * * *
61893697 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
61893759 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
61893777 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
61893842 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
61893857 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
61893921 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
61893936 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61893960 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:61893911 original size:120 final size:120
Alignment explanation
Indices: 61893697--61893959 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
61893687 TTGAATGCTG
* * *
61893697 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
61893761 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
61893817 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
61893879 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
61893936 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61893960 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
Done.