Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 256 of 332
Found at i:85428253 original size:40 final size:40
Alignment explanation
Indices: 85428209--85428383 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
85428199 CTTCGAGGGT
*
85428209 TTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
85428249 TTAGCTCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
85428289 TTAGCCCGAATATATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
85428329 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
85428369 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
85428384 ATAACTCTCA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:85429730 original size:37 final size:37
Alignment explanation
Indices: 85429677--85429779 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
85429667 CGAATAGTCC
*
85429677 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
85429714 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
85429751 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
85429780 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:85430028 original size:48 final size:48
Alignment explanation
Indices: 85429905--85430110 Score: 308
Period size: 48 Copynumber: 4.3 Consensus size: 48
85429895 GGTCATTCGG
* *
85429905 CCACAATATACACATCTCCTACATATTTCACATTAGCCATTCGGCTTATA
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT-TA
85429955 -CA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
85430001 CCACATATATATATCTCATATATATTTCACATTAGCCATTCGGTTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
85430049 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
85430097 CCACACATATATAT
1 CCACATATACATAT
85430111 TTATTTGTAC
Statistics
Matches: 143, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
46 2 0.01
47 42 0.29
48 97 0.68
49 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:85433707 original size:57 final size:57
Alignment explanation
Indices: 85433625--85433783 Score: 201
Period size: 57 Copynumber: 2.8 Consensus size: 57
85433615 GACTGATTTT
* * * *
85433625 GCACACATAGCGCTCGATTAAAGAACTCGCCCACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * * ** *
85433682 GCACGCCTAGTGCTCGATTGGAGAACTCGCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * *
85433739 GCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
85433784 TAACTCCAGC
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 86 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
Found at i:85433861 original size:40 final size:40
Alignment explanation
Indices: 85433811--85433985 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
85433801 CCTTCGAGGT
*
85433811 TTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
85433851 TTAGCTCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
85433891 TTAGCCCGAATATATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
85433931 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
85433971 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
85433986 ATAACTCTCA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:85435320 original size:37 final size:37
Alignment explanation
Indices: 85435267--85435369 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
85435257 CGAATAGTCC
*
85435267 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
85435304 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
85435341 CCACACGGAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
85435370 ATACATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:85435691 original size:48 final size:48
Alignment explanation
Indices: 85435495--85435701 Score: 315
Period size: 48 Copynumber: 4.3 Consensus size: 48
85435485 GGTCATTCGG
* *
85435495 CCACAATATACACATCTCCTACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
85435544 CAAAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
85435592 CCACATATATATATCTCATATATATTTCACATTAGCCATTCGGTTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
85435640 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
85435688 CCACACATATATAT
1 CCACATATACATAT
85435702 TTATTTTGTA
Statistics
Matches: 143, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 141 0.99
49 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:85449676 original size:18 final size:18
Alignment explanation
Indices: 85449650--85449685 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
85449640 TTTCAGGTAA
*
85449650 ATTTTGGGGACAAAATTT
1 ATTTAGGGGACAAAATTT
*
85449668 ATTTAGGGGCCAAAATTT
1 ATTTAGGGGACAAAATTT
85449686 TAACGACCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (18 bp):
ATTTAGGGGACAAAATTT
Found at i:85454151 original size:6 final size:6
Alignment explanation
Indices: 85454140--85454169 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
85454130 TAAAATCTGC
85454140 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
85454170 GTAGTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:85455918 original size:28 final size:28
Alignment explanation
Indices: 85455887--85455992 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
85455877 GAATCATTCG
* *
85455887 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
85455915 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
85455943 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
85455971 ATATTT-GTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
85455993 ATTTGATTGC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 15 0.21
28 57 0.79
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:85461873 original size:47 final size:47
Alignment explanation
Indices: 85461822--85462138 Score: 521
Period size: 47 Copynumber: 6.7 Consensus size: 47
85461812 TTAGGATTCT
* *
85461822 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
85461869 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
85461916 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
85461963 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
85462010 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
85462057 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCG
* * *
85462104 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
85462139 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
46 3 0.01
47 253 0.99
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:85462313 original size:37 final size:37
Alignment explanation
Indices: 85462257--85462335 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
85462247 CCGAGCTCTA
* * *
85462257 AAGACCCGATGACTACGTGTGGGGATTTTGTCC-AGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGA-GT
*
85462294 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
85462331 AAGAC
1 AAGAC
85462336 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:85464730 original size:28 final size:28
Alignment explanation
Indices: 85464696--85464850 Score: 121
Period size: 28 Copynumber: 5.5 Consensus size: 28
85464686 AACCGATCTT
*
85464696 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
85464724 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
85464753 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
* **** * *
85464781 GCACTCACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
* * *
85464810 GCACACACAGTGCTCGATAACGGAACTT
1 GCACACACAGTGCTCGGTTACGGAACTC
* *
85464838 ACACACATAGTGC
1 GCACACACAGTGC
85464851 CTATGTTCAC
Statistics
Matches: 97, Mismatches: 28, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
28 55 0.57
29 42 0.43
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:85464736 original size:57 final size:57
Alignment explanation
Indices: 85464666--85464852 Score: 275
Period size: 57 Copynumber: 3.2 Consensus size: 57
85464656 GATCTCATTT
* * *
85464666 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
85464725 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * **
85464782 CACTCACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATAACGGAACTTA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
85464839 CACACATAGTGCCT
1 CACACACAGTGCCT
85464853 ATGTTCACTT
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
57 111 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:85464762 original size:29 final size:29
Alignment explanation
Indices: 85464666--85464822 Score: 138
Period size: 29 Copynumber: 5.4 Consensus size: 29
85464656 GATCTCATTT
* *
85464666 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
85464697 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
85464725 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
85464754 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
85464782 CACTCACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
85464811 CACACACAGTGC
1 CACACACAGTGC
85464823 TCGATAACGG
Statistics
Matches: 94, Mismatches: 30, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
28 40 0.43
29 47 0.50
31 7 0.07
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:85466919 original size:28 final size:28
Alignment explanation
Indices: 85466831--85466937 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
85466821 GAATCATTCG
* *
85466831 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
85466859 ATATCTCACACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
85466887 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
85466915 ATATTTTGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
85466938 ATTTGATTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:85472775 original size:55 final size:52
Alignment explanation
Indices: 85472689--85472942 Score: 189
Period size: 55 Copynumber: 4.8 Consensus size: 52
85472679 TTAGGGTTTA
* *
85472689 AGGATACCATGTAAGACCATG-CAAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AGGATATCATGTAAGACCATGTC-AAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * *
85472743 TAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 -AGGATATCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * * * *
85472798 AGAGGTCTCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGC
1 AG-GATATCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
85472851 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA--A
1 -AGGATATCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * * *
85472901 AGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AGGATATCATGTAAGACCATGTCAAGACATGG-AATTGGTAAG
85472943 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 39 0.24
52 3 0.02
53 39 0.24
54 16 0.10
55 66 0.40
56 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
AGGATATCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:85472894 original size:108 final size:110
Alignment explanation
Indices: 85472696--85472895 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
85472686 TTAAGGATAC
* * *
85472696 CATGTAAGACCATGCAAAGGCATGGAAATTGGTAAGGTTTCTAAGGCTAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCAAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
85472761 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAGAGGTCT
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTCT
* * * *
85472806 CATGTAAGACCATGCCAAGGCATGG-CATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCAAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGA
*
85472868 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
85472896 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 6 0.08
110 24 0.30
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCAAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTCT
Found at i:85473155 original size:16 final size:16
Alignment explanation
Indices: 85473134--85473164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85473124 ATAAATTTGA
85473134 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
85473150 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
85473165 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:85477767 original size:24 final size:24
Alignment explanation
Indices: 85477740--85477900 Score: 112
Period size: 24 Copynumber: 6.6 Consensus size: 24
85477730 CAATCGATTT
85477740 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * * *
85477764 CGCACACTTAGTGCCATGCTAA-C
1 CGCACACATAGTGCTATTCAAATC
* * **
85477787 CTACACACGTAGTGCCT-TAGAAATC
1 C-GCACACATAGTG-CTATTCAAATC
* **
85477812 CACACACTCATA-TTATCATTCAAATC
1 CGCACA--CATAGTGCT-ATTCAAATC
* *
85477838 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
*
85477862 CGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCTATTC-AAATC
*
85477887 CGCACACTTAGTGC
1 CGCACACATAGTGC
85477901 CAATGTCATT
Statistics
Matches: 104, Mismatches: 24, Indels: 17
0.72 0.17 0.12
Matches are distributed among these distances:
23 2 0.02
24 66 0.63
25 23 0.22
26 13 0.12
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:85484335 original size:24 final size:24
Alignment explanation
Indices: 85484308--85484468 Score: 110
Period size: 24 Copynumber: 6.6 Consensus size: 24
85484298 CAATCGATTT
*
85484308 CGCACACATAGTGTTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * * * *
85484332 CGCACACTTAGTGCCATGCTAACC
1 CGCACACATAGTGCTATTCAAATC
* **
85484356 CGCACACGTAGTGCCT-TAGAAATC
1 CGCACACATAGTG-CTATTCAAATC
* * * *
85484380 CACACACTCGTATTGAC-ACTCAAATC
1 CGCACA--CATAGTG-CTATTCAAATC
* *
85484406 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
*
85484430 CGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCTATTC-AAATC
*
85484455 CGCACACTTAGTGC
1 CGCACACATAGTGC
85484469 CAATGTCATT
Statistics
Matches: 103, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 68 0.66
25 18 0.17
26 16 0.16
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:85487370 original size:44 final size:42
Alignment explanation
Indices: 85487235--85487384 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 42
85487225 AATGCCGACA
* * * *
85487235 TCCCAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAAATTCA-AATC-AAGCCTCTG
* * * **
85487278 TCCCAGATAGGGTCTTACA--TGAATTCAAATACGAAGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATTCAAAT-C-AAGCCTCTG
85487320 TCCCAGACATGGTCTTACACGTAAATCTCAAATCAAGGCCTCTG
1 TCCCAGACATGGTCTTACACGTAAAT-TCAAATCAA-GCCTCTG
*
85487364 TCCCAGACACGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
85487385 ATATCTCAGA
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 31 0.35
43 18 0.20
44 30 0.34
45 6 0.07
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAAATTCAAATCAAGCCTCTG
Found at i:85488956 original size:41 final size:42
Alignment explanation
Indices: 85488911--85488989 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
85488901 GCGACATAGC
*
85488911 CGTGTCACCCAAGTCAGTGAGTTTCAC-GGCAGAGACATGGT
1 CGTGTCACCCAAGTCAGTGAGTTACACGGGCAGAGACATGGT
** * *
85488952 CGTGTGTCTCAAGTCAGTGAGTTACACGGGCAGGGACA
1 CGTGTCACCCAAGTCAGTGAGTTACACGGGCAGAGACA
85488990 GGCCGTATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 23 0.72
42 9 0.28
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.22
Consensus pattern (42 bp):
CGTGTCACCCAAGTCAGTGAGTTACACGGGCAGAGACATGGT
Found at i:85489001 original size:41 final size:41
Alignment explanation
Indices: 85488920--85489004 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
85488910 CCGTGTCACC
* * *
85488920 CAAGTCAGTGAGTTTCACGGCAGAGACATGGTCGTGTGTCT
1 CAAGTCAGTGAGTTACACGGCAGAGACATGGCCGTATGTCT
*
85488961 CAAGTCAGTGAGTTACACGGGCAGGGACA-GGCCGTATGTCT
1 CAAGTCAGTGAGTTACAC-GGCAGAGACATGGCCGTATGTCT
85489002 CAA
1 CAA
85489005 TTTCAAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (41 bp):
CAAGTCAGTGAGTTACACGGCAGAGACATGGCCGTATGTCT
Found at i:85499454 original size:93 final size:93
Alignment explanation
Indices: 85499339--85499509 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
85499329 GCCCCTAAGT
* *
85499339 GAACTCGGACTTAACTCAACGAGCTC-GAGCGTTCGCATCCACAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCACAAGTGAACTCAGACTCAACTCA
85499403 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
85499432 GAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCAA
85499497 CGAGTTCGGATGC
66 CGAGTTCGGATGC
85499510 TCAACTATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85499505 original size:46 final size:46
Alignment explanation
Indices: 85499336--85499506 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
85499326 CCCGCCCCTA
* * * *
85499336 AGTGAACTCGGACTTAACTCAACGAGCTC-GAGCGTTCGCATCCACA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA-T
* *
85499382 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCAT
* *
85499429 CA-CGAACTCGGACTCAGCTCAACGAGTTCGGA-CATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
85499474 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
85499507 TGCTCAACTA
Statistics
Matches: 102, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 54 0.53
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
Found at i:85499963 original size:30 final size:30
Alignment explanation
Indices: 85499929--85499988 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
85499919 ATTTAATACG
85499929 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
85499959 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
85499989 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:85503077 original size:14 final size:14
Alignment explanation
Indices: 85503058--85503096 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
85503048 TTTTGAAATA
85503058 TTTTTTAAAATTTT
1 TTTTTTAAAATTTT
*
85503072 TTTTTT-TAATTTT
1 TTTTTTAAAATTTT
*
85503085 TTTTTTAGAATT
1 TTTTTTAAAATT
85503097 AGGATCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTTAAAATTTT
Found at i:85503246 original size:61 final size:61
Alignment explanation
Indices: 85503175--85503297 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
85503165 TACCAATGAT
* *
85503175 TAAATTTGTTATTATGTCAATTTTAGAATGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
1 TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
*
85503236 TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAATGAACTAAAAAAGGG
1 TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
85503297 T
1 T
85503298 TTAATACATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (61 bp):
TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
Found at i:85505341 original size:22 final size:23
Alignment explanation
Indices: 85505314--85505358 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
85505304 GGGTATCTAC
85505314 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
85505336 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
85505359 TATCATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:85505362 original size:17 final size:17
Alignment explanation
Indices: 85505340--85505390 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
85505330 ATTACAAAAT
85505340 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
85505357 CATATCATAAT-TAAGATTG
1 CATATC-T--TCTAAGATTA
*
85505376 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
85505391 CATGTTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 2 0.07
19 13 0.46
20 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:85505363 original size:22 final size:21
Alignment explanation
Indices: 85505311--85505365 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
85505301 AAAGGGTATC
*
85505311 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
85505332 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
85505355 TACATATCATA
1 TACAAATCATA
85505366 ATTAAGATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:85506842 original size:32 final size:32
Alignment explanation
Indices: 85506801--85506865 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
85506791 AGTACGATGT
85506801 ATACCTGGATGGCCAGCTCATTTGGAATCATG
1 ATACCTGGATGGCCAGCTCATTTGGAATCATG
*
85506833 ATACCTGGATGGCCAGCTCATTTGGAATTATG
1 ATACCTGGATGGCCAGCTCATTTGGAATCATG
85506865 A
1 A
85506866 CATTCCTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (32 bp):
ATACCTGGATGGCCAGCTCATTTGGAATCATG
Found at i:85510419 original size:22 final size:23
Alignment explanation
Indices: 85510387--85510429 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
85510377 GGGTATCTAC
*
85510387 AAATCAAATC-TCTAATATTATA
1 AAATCAAATCTTCTAAGATTATA
*
85510409 AAATCATATCTTCTAAGATTA
1 AAATCAAATCTTCTAAGATTA
85510430 CATATCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTATA
Found at i:85510435 original size:17 final size:17
Alignment explanation
Indices: 85510413--85510463 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
85510403 ATTATAAAAT
85510413 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
85510430 CATATCAGATCTAAGATTA
1 CATATC--TTCTAAGATTA
*
85510449 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
85510464 CATGTTTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.45
19 16 0.55
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:85516470 original size:7 final size:7
Alignment explanation
Indices: 85516454--85516486 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
85516444 ATTCATATTT
85516454 AAAA-TA
1 AAAATTA
85516460 AAAATTA
1 AAAATTA
85516467 AAAATTAA
1 AAAATT-A
85516475 AAAATTA
1 AAAATTA
85516482 AAAAT
1 AAAAT
85516487 ACCACCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.16
7 14 0.56
8 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:85516880 original size:38 final size:38
Alignment explanation
Indices: 85516826--85516907 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
85516816 CATTCGAATG
*
85516826 TTGATTTGGGTTTAAAAGATTCGCATCCAATTTGACCA
1 TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
85516864 TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
1 TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
*
85516902 TAGATT
1 TTGATT
85516908 CACTAGGGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (38 bp):
TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
Found at i:85523725 original size:14 final size:14
Alignment explanation
Indices: 85523706--85523734 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
85523696 AATCTTCTTC
85523706 TTTTTTGCAATGAT
1 TTTTTTGCAATGAT
85523720 TTTTTTGCAATGAT
1 TTTTTTGCAATGAT
85523734 T
1 T
85523735 GGTATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTTTTGCAATGAT
Found at i:85529936 original size:21 final size:21
Alignment explanation
Indices: 85529910--85529978 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
85529900 GTATGAGGAG
*
85529910 GGCACACAGTCGTGTGACTAA
1 GGCACACAGCCGTGTGACTAA
* *
85529931 GGCACACACCCGTGTGGAGT--
1 GGCACACAGCCGTGT-GACTAA
85529951 GGCACACAGCCGTGTGACTGAA
1 GGCACACAGCCGTGTGACT-AA
85529973 -GCACAC
1 GGCACAC
85529979 CCATGTGGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 3 0.08
20 14 0.36
21 19 0.49
22 3 0.08
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.14
Consensus pattern (21 bp):
GGCACACAGCCGTGTGACTAA
Found at i:85536804 original size:26 final size:27
Alignment explanation
Indices: 85536736--85536804 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
85536726 ATAATATTAT
85536736 ATATTTAAATTTTTATTAGTTATATTTTA
1 ATATTTAAA-TTTTA-TAGTTATATTTTA
*
85536765 ATATTTAAA--ATATAGTTTATATTTTA
1 ATATTTAAATTTTATAG-TTATATTTTA
85536791 A-A-TTAAATTTTATA
1 ATATTTAAATTTTATA
85536805 ATTAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
26 17 0.49
29 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
ATATTTAAATTTTATAGTTATATTTTA
Found at i:85539235 original size:29 final size:29
Alignment explanation
Indices: 85539193--85539250 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
85539183 TATCAACTTT
85539193 TCCGAAAGGAGCCAACGAATTCCCTTCCC
1 TCCGAAAGGAGCCAACGAATTCCCTTCCC
*
85539222 TCCGACAGGAGCCAACGAATTCCCTTCCC
1 TCCGAAAGGAGCCAACGAATTCCCTTCCC
85539251 AGATATGGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.40, G:0.17, T:0.17
Consensus pattern (29 bp):
TCCGAAAGGAGCCAACGAATTCCCTTCCC
Found at i:85543216 original size:27 final size:27
Alignment explanation
Indices: 85543157--85543239 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
85543147 TATTTAACAT
*
85543157 AAATAAAATATAAAACAATTTGAAATA
1 AAATAAAATATAAAACAATTTCAAATA
*
85543184 AAATAAAATATAAAGCAA-TTCAAA-A
1 AAATAAAATATAAAACAATTTCAAATA
* * * *
85543209 ATAGATAATATATGATACAATTTAAAATA
1 A-A-ATAAAATATAAAACAATTTCAAATA
85543238 AA
1 AA
85543240 TAATATCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 29 0.64
28 6 0.13
29 2 0.04
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (27 bp):
AAATAAAATATAAAACAATTTCAAATA
Found at i:85543243 original size:26 final size:26
Alignment explanation
Indices: 85543148--85543314 Score: 106
Period size: 26 Copynumber: 6.5 Consensus size: 26
85543138 TGTAAAAAAT
*
85543148 ATTTAACATAAATAAAATATAAAACA
1 ATTTAAAATAAATAAAATATAAAACA
* *
85543174 ATTTGAAATAAAATAAAATATAAAGCA
1 ATTTAAAAT-AAATAAAATATAAAACA
* * * * *
85543201 ATTCAAAAATAGATAATATATGATACA
1 ATT-TAAAATAAATAAAATATAAAACA
* * * *
85543228 ATTTAAAATAAATAATATCTAACATA
1 ATTTAAAATAAATAAAATATAAAACA
* * * *
85543254 ATTTAAAGTGAAT--AATATGAGACA
1 ATTTAAAATAAATAAAATATAAAACA
** * *
85543278 ATTTAGTATAAATAACATATAAGA-A
1 ATTTAAAATAAATAAAATATAAAACA
*
85543303 ATTTAAGATAAA
1 ATTTAAAATAAA
85543315 ATATAAAACC
Statistics
Matches: 106, Mismatches: 31, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
24 15 0.14
25 11 0.10
26 42 0.40
27 34 0.32
28 4 0.04
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (26 bp):
ATTTAAAATAAATAAAATATAAAACA
Found at i:85545067 original size:44 final size:44
Alignment explanation
Indices: 85544953--85545267 Score: 258
Period size: 44 Copynumber: 7.0 Consensus size: 44
85544943 TAGGATTTGT
* * * *
85544953 GACTCGTAACTTTAATCTATTCCACTGCAACTTTAGGGAAATAA
1 GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
*
85544997 GA-TTCGCTAACTTTATTCTACTCCACTGCAACTTCAGGGAGATAA
1 GACTT-G-TAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * *
85545042 GACTTGTAACTTTAACCTGCTCCACTGCAACTTCAAGAAGATAA
1 GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* ** * * *
85545086 TG-TTTGTGGCTTTAATTTGCTCCACTGCAACTTTAGGGAGATAA
1 -GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * * *
85545130 AATTTGTAGCCTGTCTTCAATCTATTCCAATGCAACTTCAGGGAGATAA
1 GACTTGTA-AC--T-TT-AATCTACTCCACTGCAACTTCAGGGAGATAA
* ** *
85545179 GACTTGTAA-TTTCAACCTGTTCCACTGAAACTTCAGGGAGATAA
1 GACTTGTAACTTT-AATCTACTCCACTGCAACTTCAGGGAGATAA
** * * * *
85545223 GGTTTGTAGCTTCAATCTACTCCATTACAACTTCAGGGAGATAA
1 GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
85545267 G
1 G
85545268 TTTTTCCAAG
Statistics
Matches: 217, Mismatches: 43, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.00
44 137 0.63
45 42 0.19
46 2 0.01
47 1 0.00
48 2 0.01
49 32 0.15
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
Found at i:85545185 original size:137 final size:137
Alignment explanation
Indices: 85545013--85545266 Score: 366
Period size: 137 Copynumber: 1.9 Consensus size: 137
85545003 CTAACTTTAT
* *
85545013 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT-AACCTGCTCCACTGCAACTTCA
1 TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAA-TTTCAACCTGCTCCACTGAAACTTCA
* * * * * * *
85545077 AGAAGATAATGTTTGTGGCTTTAATTTGCTCCACTGCAACTTTAGGGAGATAAAATTTGTAGCCT
65 AGAAGATAAGGTTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAAATTTGTAGCCT
85545142 GTCTTCAA
130 GTCTTCAA
* * *
85545150 TCTATTCCAATGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGTTCCACTGAAACTTCAG
1 TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGAAACTTCAA
* *
85545215 GGAGATAAGGTTTGTAGCTTCAATCTACTCCATTACAACTTCAGGGAGATAA
66 GAAGATAAGGTTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAA
85545267 GTTTTTCCAA
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
136 3 0.03
137 99 0.97
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (137 bp):
TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGAAACTTCAA
GAAGATAAGGTTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAAATTTGTAGCCTG
TCTTCAA
Found at i:85546117 original size:15 final size:15
Alignment explanation
Indices: 85546097--85546126 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85546087 CCCTTATTCT
85546097 TGTTAATTCAGAGAG
1 TGTTAATTCAGAGAG
85546112 TGTTAATTCAGAGAG
1 TGTTAATTCAGAGAG
85546127 GACAAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
TGTTAATTCAGAGAG
Found at i:85553435 original size:19 final size:20
Alignment explanation
Indices: 85553403--85553446 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
85553393 GGGTCTTTTC
* *
85553403 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGCAGATGA
*
85553422 ATGAAATGTCATGCAGATGA
1 ATGAAATGTAATGCAGATGA
85553442 ATGAA
1 ATGAA
85553447 TGCAAAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGAAATGTAATGCAGATGA
Found at i:85557148 original size:26 final size:25
Alignment explanation
Indices: 85557119--85557259 Score: 90
Period size: 27 Copynumber: 5.4 Consensus size: 25
85557109 TGTGAAAAAG
85557119 ATTTAACATAAATAAAATATAAAACA
1 ATTTAA-ATAAATAAAATATAAAACA
*
85557145 ATTTGAAATAAAATAAAATATAAAGCA
1 ATTT-AAAT-AAATAAAATATAAAACA
* * * *
85557172 ATTCAAAAATAAATAATATATGACACA
1 ATT--TAAATAAATAAAATATAAAACA
* * *
85557199 ATTTAAAGTGAAT--AATATGAGACA
1 ATTTAAA-TAAATAAAATATAAAACA
* * *
85557223 ATTTAGTATAAATAACATATAAGA-A
1 ATTTA-AATAAATAAAATATAAAACA
85557248 ATTTAAGATAAA
1 ATTTAA-ATAAA
85557260 ATATAAAACC
Statistics
Matches: 91, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
24 18 0.20
25 15 0.16
26 17 0.19
27 37 0.41
28 4 0.04
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (25 bp):
ATTTAAATAAATAAAATATAAAACA
Found at i:85560778 original size:38 final size:38
Alignment explanation
Indices: 85560671--85560779 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 38
85560661 TATTCGATGT
* * **
85560671 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGACTTCGTGCTGGTAAA
* **
85560709 ATATCCGGACTTAAAGAGCCGCA-AGCTTCGTGCTGGTAAA
1 ATATCCGG-GTTAAA-TCCCGCAGA-CTTCGTGCTGGTAAA
85560749 ATATCCGGGTTAAATCCCGCAGACTTCGTGC
1 ATATCCGGGTTAAATCCCGCAGACTTCGTGC
85560780 CGGTGATGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
38 21 0.37
39 11 0.19
40 25 0.44
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGACTTCGTGCTGGTAAA
Found at i:85560833 original size:43 final size:43
Alignment explanation
Indices: 85560767--85560858 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
85560757 GTTAAATCCC
* *
85560767 GCAGACTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCATA
*
85560810 GTAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCATA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCATA
85560853 GCAGGC
1 GCAGGC
85560859 GTAATGCTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCATA
Found at i:85560871 original size:43 final size:43
Alignment explanation
Indices: 85560777--85560871 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
85560767 GCAGACTTCG
* * * **
85560777 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTCG
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCATAGCAGGCGTAA
85560820 TGCCGGTGATGTGTATTCGGGCCTTCGTGCATAGCAGGCGTAA
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCATAGCAGGCGTAA
*
85560863 TGCTGGTGA
1 TGCCGGTGA
85560872 AATGATATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.13, C:0.21, G:0.36, T:0.31
Consensus pattern (43 bp):
TGCCGGTGATGTGTATTCGGGCCTTCGTGCATAGCAGGCGTAA
Found at i:85561255 original size:45 final size:42
Alignment explanation
Indices: 85561188--85561295 Score: 137
Period size: 45 Copynumber: 2.5 Consensus size: 42
85561178 TTGACTTGAT
* *
85561188 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
*
85561233 TATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
85561275 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
85561296 ACAGGCGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.22
44 7 0.12
45 35 0.60
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:85566530 original size:38 final size:38
Alignment explanation
Indices: 85566479--85566680 Score: 289
Period size: 38 Copynumber: 5.3 Consensus size: 38
85566469 ATATTCGATG
85566479 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
85566517 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
85566555 TATATCCGGGCTT-AATGACCCACAGGCTTCGTGTTGGTAA
1 TATATCCGGG-TTAAAT--CCCGCAGGCTTCGTGCTGGTAT
*
85566595 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
85566633 TATATCCGGGATAAATCTCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
85566671 TATATTCGGG
1 TATATCCGGG
85566681 CCTTCGTGCC
Statistics
Matches: 147, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
38 112 0.76
39 4 0.03
40 31 0.21
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:85566587 original size:78 final size:76
Alignment explanation
Indices: 85566479--85566669 Score: 267
Period size: 78 Copynumber: 2.5 Consensus size: 76
85566469 ATATTCGATG
* **
85566479 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTT
85566544 CGTGCTGGTAT
66 CGTGCTGGTAT
*
85566555 TATATCCGGGCTT-AATGACCCACAGGCTTCGTGTTGGTAAAATATCCGGGTTAAATCCCGCAGG
1 TATATCCGGG-TTAAAT--CCCACAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCGCAGG
85566619 CTTCGTGCTGGTAT
63 CTTCGTGCTGGTAT
* * * * *
85566633 TATATCCGGGATAAATCTCGCAGGCCTAGTGCTGGTA
1 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTA
85566670 TTATATTCGG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
76 29 0.29
77 3 0.03
78 69 0.68
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTT
CGTGCTGGTAT
Found at i:85566752 original size:43 final size:43
Alignment explanation
Indices: 85566673--85566754 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
85566663 GCTGGTATTA
* **
85566673 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATACCGGTGATGTG
*
85566716 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATACCGGTGA
85566755 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATACCGGTGATGTG
Found at i:85575833 original size:18 final size:18
Alignment explanation
Indices: 85575789--85575827 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
85575779 TTCTTCAGGG
85575789 TATCATTCTTCTTTCTCC
1 TATCATTCTTCTTTCTCC
85575807 TATCATTCTTCTTTCTCC
1 TATCATTCTTCTTTCTCC
85575825 TAT
1 TAT
85575828 GGTTCTCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (18 bp):
TATCATTCTTCTTTCTCC
Found at i:85578754 original size:32 final size:32
Alignment explanation
Indices: 85578718--85578784 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
85578708 GAAGATGGCT
85578718 ACCTACAAGTTTTAGTCAAAGAGAAGTAGGTC
1 ACCTACAAGTTTTAGTCAAAGAGAAGTAGGTC
85578750 ACCTACAAGTTTTAGTCAAAGAGAAGTAGGTC
1 ACCTACAAGTTTTAGTCAAAGAGAAGTAGGTC
85578782 ACC
1 ACC
85578785 GAGTGGAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (32 bp):
ACCTACAAGTTTTAGTCAAAGAGAAGTAGGTC
Found at i:85579543 original size:15 final size:15
Alignment explanation
Indices: 85579523--85579554 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
85579513 ATGTTTATCG
85579523 ATACTTGATAAGACA
1 ATACTTGATAAGACA
85579538 ATACTTGATAAGACA
1 ATACTTGATAAGACA
85579553 AT
1 AT
85579555 GTAAATTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (15 bp):
ATACTTGATAAGACA
Found at i:85579794 original size:16 final size:17
Alignment explanation
Indices: 85579775--85579819 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
85579765 CGGGATTTCC
85579775 TTCTTTTTCTCTCC-CT
1 TTCTTTTTCTCTCCTCT
*
85579791 TTCTTTCTC-CTTCCTCT
1 TTCTTTTTCTC-TCCTCT
85579808 TTC-TTTTCTCTC
1 TTCTTTTTCTCTC
85579820 TTTTTCGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTCTCTCCTCT
Found at i:85583517 original size:32 final size:32
Alignment explanation
Indices: 85583481--85583545 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
85583471 CCATTGGTTG
85583481 TGTTGCGACATTGAAGGCAGTCTTGGAATTCT
1 TGTTGCGACATTGAAGGCAGTCTTGGAATTCT
85583513 TGTTGCGACATTGAAGGCAGTCTTGGAATTCT
1 TGTTGCGACATTGAAGGCAGTCTTGGAATTCT
85583545 T
1 T
85583546 ACTCTATCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (32 bp):
TGTTGCGACATTGAAGGCAGTCTTGGAATTCT
Found at i:85585683 original size:49 final size:49
Alignment explanation
Indices: 85585580--85585710 Score: 127
Period size: 49 Copynumber: 2.7 Consensus size: 49
85585570 TGTTGAGTGT
* * *
85585580 CAGTGTAAGACCTGTCTGGGATATGGCATCGACATCGATAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACATCGATAAATGAAAGC
* * * ** *
85585629 CAGTGTAAGACCTGTCTGGGGCACGGCATCGGCCTCGATGTATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACATCGATAAATGAAAGC
* * * * **
85585678 GAGTGTAAAACTTATCTGGGACATAGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGAC
85585711 TTTGATGTGC
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACGGCATCGACATCGATAAATGAAAGC
Found at i:85592101 original size:25 final size:25
Alignment explanation
Indices: 85592045--85592101 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
85592035 ATTTAATTAA
85592045 TAAAAATTATTAATAATTCAATAAAT
1 TAAAAATTA-TAATAATTCAATAAAT
*
85592071 TGAAAAATTA-AATAATTGAATAAAAT
1 T-AAAAATTATAATAATTCAAT-AAAT
85592097 TAAAA
1 TAAAA
85592102 TTTAGGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 14 0.50
26 6 0.21
27 8 0.29
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAAATTATAATAATTCAATAAAT
Found at i:85592964 original size:29 final size:30
Alignment explanation
Indices: 85592907--85592964 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
85592897 CTTTTGAAAA
* * * *
85592907 TATTTATAAAAAGAGGCACCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACAAAATTTTAT
85592937 TATTTACAAAAAGA-GCAACAAAATTTTA
1 TATTTACAAAAAGAGGCAACAAAATTTTA
85592965 AAAATAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACAAAATTTTAT
Found at i:85598534 original size:47 final size:47
Alignment explanation
Indices: 85598436--85598563 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
85598426 AGTCGATAAG
* * ** *
85598436 TACCTATACCATGGCCCGTAGCCCAATCAAGGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
* * * * *
85598483 TACCTATACCATGGCACATAGCCAAATCAAGGTAGCTCCTCTCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
*
85598530 TACCTATACCATGGCCCGTGGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
85598564 TTATTTGCAC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
Found at i:85600204 original size:21 final size:21
Alignment explanation
Indices: 85600178--85600233 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
85600168 AACAGGGCTT
*
85600178 ACACGCCCGTGTGGCTTTGGG
1 ACACGCCCGTGTGGCTTTAGG
85600199 ACACGCCCGTGTGGCTTTAGG
1 ACACGCCCGTGTGGCTTTAGG
*
85600220 ACACGCTCGTGTGG
1 ACACGCCCGTGTGG
85600234 GCAGGCCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.12, C:0.29, G:0.36, T:0.23
Consensus pattern (21 bp):
ACACGCCCGTGTGGCTTTAGG
Found at i:85601374 original size:42 final size:42
Alignment explanation
Indices: 85601263--85601384 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
85601253 TACCATACTA
* * * *
85601263 ATGCTATATCCTAGATATGGTCTTACATGAGATCCCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
85601305 ATGCCAATAGCCCAGCTATAGTCTTACATGAAATCTCATGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
85601348 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
85601385 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:85607533 original size:63 final size:64
Alignment explanation
Indices: 85607453--85607635 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 64
85607443 AGACATTATG
*
85607453 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
85607516 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
85607581 AA
63 AA
* * * *
85607583 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
85607636 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 39 0.40
64 5 0.05
65 6 0.06
66 40 0.41
67 5 0.05
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:85623639 original size:56 final size:56
Alignment explanation
Indices: 85623548--85623686 Score: 188
Period size: 56 Copynumber: 2.5 Consensus size: 56
85623538 AAGACCATGG
* * ** *
85623548 CTTCGATATGTGATGTGCGAGTAAGACCATGTTTTATACGTTGGAATCGATTTATGA
1 CTTCGATATATG-TGTGCGAGTAAGACAACATTTTATACGTTGGAATCGATATATGA
* *
85623605 CTTCGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGCATCGATATGTGA
1 CTTCGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGAATCGATATATGA
* *
85623661 CTCCGATATATGTATGCGAGTAAGAC
1 CTTCGATATATGTGTGCGAGTAAGAC
85623687 CCTGTATGGG
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 62 0.85
57 11 0.15
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
CTTCGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGAATCGATATATGA
Found at i:85626564 original size:23 final size:23
Alignment explanation
Indices: 85626520--85626565 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
85626510 ACACGCCCAT
* *
85626520 GTGCCAAGGTTGTGTGCATCACA
1 GTGCCAAGGCTGTATGCATCACA
* *
85626543 GTGCCAGGGCTGTATGCCTCACA
1 GTGCCAAGGCTGTATGCATCACA
85626566 CGGTCACCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (23 bp):
GTGCCAAGGCTGTATGCATCACA
Found at i:85627665 original size:43 final size:43
Alignment explanation
Indices: 85627618--85627759 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 43
85627608 TCTTACATGT
*
85627618 AATCAAATATCGATGCCACTGTCCCAGACAGGGCCTTACACAA
1 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAA
* * * * *
85627661 AATCAAATA-CAATGTCGA-TATCCCAGACATGGTCTTACACGTA
1 AATCAAATATCGATG-CCACTGTCCCAGACAGGGTCTTACAC-AA
* *
85627704 AATCTCAA-ATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGA
1 AATC-AAATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACACAA
*
85627747 AATCACATATCGA
1 AATCAAATATCGA
85627760 AAATCCTATG
Statistics
Matches: 77, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
42 24 0.31
43 28 0.36
44 25 0.32
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.22
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAA
Found at i:85641835 original size:40 final size:40
Alignment explanation
Indices: 85641761--85641959 Score: 264
Period size: 40 Copynumber: 5.0 Consensus size: 40
85641751 GATGATAACG
* *
85641761 GGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
85641800 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
85641839 GGGCTAAGT-CCGAAGGCATTTGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
85641878 GGGCTAAGTTCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
85641918 GGGCTAAGTCCCGAAGGCATTTGAGCG-GGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
85641958 GG
1 GG
85641960 TTAAAGCCCG
Statistics
Matches: 144, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
38 24 0.17
39 44 0.31
40 76 0.53
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:85641892 original size:78 final size:80
Alignment explanation
Indices: 85641761--85641940 Score: 262
Period size: 78 Copynumber: 2.3 Consensus size: 80
85641751 GATGATAACG
85641761 GGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
** *
85641825 CGAGTTACTA-ATTC
66 CGAACTACTATATCC
* *
85641839 GGGCTAAGT-CCGAAGGCATTTGTG-TGAGTTACT-ATATCCGGGCTAAGTTCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
85641901 TGCGAACTACTATATCC
64 TGCGAACTACTATATCC
85641918 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
85641941 AGCGGGTAGC
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
77 12 0.13
78 55 0.60
79 12 0.13
80 13 0.14
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAACTACTATATCC
Found at i:85650071 original size:40 final size:41
Alignment explanation
Indices: 85649798--85650072 Score: 410
Period size: 40 Copynumber: 7.0 Consensus size: 41
85649788 CGGATGATAA
* *
85649798 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
85649838 CGGGCTAAGTCCC-AAGGCATTTGT--GAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
85649875 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
*
85649914 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATA-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
85649954 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
**
85649994 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
*
85650034 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
85650073 CTGGTTAAAG
Statistics
Matches: 220, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
36 2 0.01
37 32 0.15
39 36 0.16
40 148 0.67
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
Found at i:85661156 original size:28 final size:28
Alignment explanation
Indices: 85661116--85661173 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
85661106 TGTAATTGTG
*
85661116 CACAAGAGAAGGCCTCAGCTCCAGATGT
1 CACAAGAGAAGGCCTCAGCTCCAAATGT
85661144 CACAAGAGAAGGCCTCAGCTCCAAATGT
1 CACAAGAGAAGGCCTCAGCTCCAAATGT
85661172 CA
1 CA
85661174 TTCCTGGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.14
Consensus pattern (28 bp):
CACAAGAGAAGGCCTCAGCTCCAAATGT
Found at i:85670658 original size:17 final size:17
Alignment explanation
Indices: 85670622--85670669 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
85670612 CCCAATGGAC
* *
85670622 AATGCACTGAC-ATGAG
1 AATGCAATGACAATGAA
*
85670638 AATGTAATGACAATGAA
1 AATGCAATGACAATGAA
*
85670655 AATGCAATGGCAATG
1 AATGCAATGACAATG
85670670 TATACTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:85671126 original size:21 final size:21
Alignment explanation
Indices: 85671100--85671150 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 21
85671090 TCATTTTCAG
85671100 CAACTTTTTCTTCTTCAGCAA
1 CAACTTTTTCTTCTTCAGCAA
* *
85671121 CAAC--TTTC-ACTTCGGCAA
1 CAACTTTTTCTTCTTCAGCAA
85671139 CAACTTTTTCTT
1 CAACTTTTTCTT
85671151 TTGTAGCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
18 12 0.50
19 4 0.17
20 4 0.17
21 4 0.17
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (21 bp):
CAACTTTTTCTTCTTCAGCAA
Found at i:85673040 original size:24 final size:24
Alignment explanation
Indices: 85673003--85673072 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
85672993 AACTCCTCCT
85673003 GAGCTGATGAATAGTAAGCTCT-ATC
1 GAGCTGA-GAATAGTAAGCTCTGA-C
85673028 GAGCT-AGAAATAGTAAGCTCTGAC
1 GAGCTGAG-AATAGTAAGCTCTGAC
*
85673052 GAGCTGAGAACAGTAAGCTCT
1 GAGCTGAGAATAGTAAGCTCT
85673073 TATGAGTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 1 0.02
24 32 0.78
25 8 0.20
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (24 bp):
GAGCTGAGAATAGTAAGCTCTGAC
Found at i:85673937 original size:13 final size:13
Alignment explanation
Indices: 85673919--85673943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85673909 AATTGATATC
85673919 TGTGAAAATTTTG
1 TGTGAAAATTTTG
85673932 TGTGAAAATTTT
1 TGTGAAAATTTT
85673944 ATTGTTTGTG
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:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:85675139 original size:42 final size:43
Alignment explanation
Indices: 85675079--85675177 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
85675069 ATTTGAGATG
* *
85675079 TACATGTAAGACCATGTTTGAGACA-TCGGTATC-GTATTTGAT
1 TACATGTAAGACCATGTTTGAGACAGT-GGCATCAATATTTGAT
* * * *
85675121 TTCGTGTAAGACCCTGTTTGGGACAGTGGCATCAATATTTGAT
1 TACATGTAAGACCATGTTTGAGACAGTGGCATCAATATTTGAT
85675164 TACATGTAAGACCA
1 TACATGTAAGACCA
85675178 CATCTGGGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (43 bp):
TACATGTAAGACCATGTTTGAGACAGTGGCATCAATATTTGAT
Found at i:85678457 original size:17 final size:19
Alignment explanation
Indices: 85678423--85678460 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
85678413 AAACCTTTAA
85678423 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
85678442 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
85678459 TT
1 TT
85678461 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:85678528 original size:12 final size:12
Alignment explanation
Indices: 85678511--85678540 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85678501 TAATTCTTTC
*
85678511 TTTTTATTTCCT
1 TTTTTATTTACT
85678523 TTTTTATTTACT
1 TTTTTATTTACT
85678535 TTTTTA
1 TTTTTA
85678541 ATAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATTTACT
Found at i:85700268 original size:44 final size:42
Alignment explanation
Indices: 85700189--85700303 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
85700179 TTTCGATATG
** ** *
85700189 TGATTTCGTGTAAGACCACATCTAGGATGTTGGCATCA-ATT
1 TGATTTCGTGTAAGACCATGTCTAGGACATCGGCATCACATT
*
85700230 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCACATT
1 T--GATTT-CGTGTAAGACCATGTCTAGGACATCGGCATCACATT
* *
85700275 TGATTTTGTGTAAGACCTTGTCTAGGACA
1 TGATTTCGTGTAAGACCATGTCTAGGACA
85700304 GTAGAATCGA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 20 0.33
43 10 0.16
44 26 0.43
45 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTAGGACATCGGCATCACATT
Found at i:85703063 original size:46 final size:46
Alignment explanation
Indices: 85702996--85703087 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
85702986 CTTCGAGACG
85702996 TAGTCAATAGTGACTAATATATAAAGATTTCCAAATGAACTTGAAA
1 TAGTCAATAGTGACTAATATATAAAGATTTCCAAATGAACTTGAAA
85703042 TAGTCAATAGTGACTAATATATAAAGATTTCCAAATGAACTTGAAA
1 TAGTCAATAGTGACTAATATATAAAGATTTCCAAATGAACTTGAAA
85703088 ATGGTCCCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (46 bp):
TAGTCAATAGTGACTAATATATAAAGATTTCCAAATGAACTTGAAA
Found at i:85719408 original size:48 final size:48
Alignment explanation
Indices: 85719344--85719464 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
85719334 GTACCTATAC
* * * *
85719344 CATGACCCAAAGCCAAATCAATGTAACTTATAACCAAAGTACTGATAT
1 CATGGCCCGAAGCCAAATCAATGTAACTCATAACCAAAGTACTAATAT
** * * * * * *
85719392 CATGGCCCGAAGCCAAATCGGTATATCTCGTACCCGAAGTGCTAATAT
1 CATGGCCCGAAGCCAAATCAATGTAACTCATAACCAAAGTACTAATAT
*
85719440 CATGGCCCGAAGCCAACTCAATGTA
1 CATGGCCCGAAGCCAAATCAATGTA
85719465 TCCCCTAATG
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (48 bp):
CATGGCCCGAAGCCAAATCAATGTAACTCATAACCAAAGTACTAATAT
Found at i:85722051 original size:28 final size:28
Alignment explanation
Indices: 85721998--85722062 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
85721988 CCATCACAAA
* * *
85721998 AACAGTATCAGGTGGGCCTTAGCCCAAT
1 AACAGAATCAGATGGGCCTTAACCCAAT
85722026 AACAGAATCAGATGGG-CTTAAACCCAAT
1 AACAGAATCAGATGGGCCTT-AACCCAAT
85722054 -ACAGAATCA
1 AACAGAATCA
85722063 AACCAGATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (28 bp):
AACAGAATCAGATGGGCCTTAACCCAAT
Found at i:85722901 original size:18 final size:17
Alignment explanation
Indices: 85722871--85722904 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85722861 TTACCCACAC
*
85722871 GGGCCCATGGGCCCATT
1 GGGCCCATCGGCCCATT
85722888 GGGCCCATACGGCCCAT
1 GGGCCCAT-CGGCCCAT
85722905 GAGATCGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.38, G:0.32, T:0.15
Consensus pattern (17 bp):
GGGCCCATCGGCCCATT
Found at i:85729576 original size:79 final size:80
Alignment explanation
Indices: 85729478--85729660 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
85729468 TACTCATTCA
* *
85729478 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
85729541 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
85729558 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
85729622 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
85729637 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
85729661 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:85729660 original size:40 final size:40
Alignment explanation
Indices: 85729476--85729660 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
85729466 GCTACTCATT
* *
85729476 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
85729516 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
85729556 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
85729595 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
85729636 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85729661 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:85730764 original size:85 final size:85
Alignment explanation
Indices: 85730635--85730813 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
85730625 TATTTTATTG
85730635 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
85730700 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
85730720 CCCATGCTCTTTCTTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
85730785 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
85730805 CCCATGCTC
1 CCCATGCTC
85730814 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:85737429 original size:79 final size:80
Alignment explanation
Indices: 85737261--85737445 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
85737251 GCTACTCGTT
* * *
85737261 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCAGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
85737325 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
85737342 CAATGCCTTCAGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
85737405 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
85737421 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCAGGACTTAGCCCGGA
85737446 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:85737445 original size:40 final size:40
Alignment explanation
Indices: 85737242--85737445 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
85737232 CGGAATTTAA
** *
85737242 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85737282 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85737322 CCGGATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85737361 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85737401 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85737441 CCGGA
1 CCGGA
85737446 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85738550 original size:85 final size:85
Alignment explanation
Indices: 85738421--85738599 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
85738411 TATTTTATTG
85738421 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
85738486 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
85738506 CCCATGCTCTTTATTTTATTAATCCTTATATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
85738571 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
85738591 CCCATGCTC
1 CCCATGCTC
85738600 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:85741225 original size:38 final size:37
Alignment explanation
Indices: 85741174--85741262 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
85741164 GTGCTCAGGT
* *
85741174 GTGTTATCGGTTGGATTTAGCTCTCATGAGTGTTTGGC
1 GTGTTATTGGTTGG-GTTAGCTCTCATGAGTGTTTGGC
* *
85741212 GTGTTATTAGTTGGGTTAGCTCTTATGAGTGTTTGGC
1 GTGTTATTGGTTGGGTTAGCTCTCATGAGTGTTTGGC
85741249 GTGTT-TTGGTTGGG
1 GTGTTATTGGTTGGG
85741263 CTATTTGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 8 0.17
37 26 0.57
38 12 0.26
ACGTcount: A:0.11, C:0.09, G:0.35, T:0.45
Consensus pattern (37 bp):
GTGTTATTGGTTGGGTTAGCTCTCATGAGTGTTTGGC
Found at i:85750505 original size:25 final size:26
Alignment explanation
Indices: 85750454--85750506 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
85750444 CTTGAGCTCC
* *
85750454 CAAGGTGCCTCGTCGATTAATTCTTT
1 CAAGGTGACTCGTCGACTAATTCTTT
85750480 CAAGGTGACT-GTCGAGCTAATT-TTT
1 CAAGGTGACTCGTCGA-CTAATTCTTT
85750505 CA
1 CA
85750507 CCTTTTGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
CAAGGTGACTCGTCGACTAATTCTTT
Found at i:85756970 original size:13 final size:13
Alignment explanation
Indices: 85756952--85756992 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
85756942 CTTGCTTTAA
85756952 AATATTTTATTTT
1 AATATTTTATTTT
*
85756965 AATATTATATTTT
1 AATATTTTATTTT
*
85756978 -ATATTTTAGTTT
1 AATATTTTATTTT
85756990 AAT
1 AAT
85756993 TGTTAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
AATATTTTATTTT
Found at i:85757085 original size:24 final size:23
Alignment explanation
Indices: 85757056--85757126 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
85757046 AGAGAAATAT
85757056 AATTTAAAATTAATTTTATATAAA
1 AATTTAAAATTAATTTT-TATAAA
*** * *
85757080 AATTTATGTTTAATATTTTTTTAA
1 AATTTAAAATTAAT-TTTTATAAA
85757104 AATTATAAAATTAATTTGTTATA
1 AATT-TAAAATTAATTT-TTATA
85757127 TTTGAATTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
AATTTAAAATTAATTTTTATAAA
Found at i:85757242 original size:17 final size:15
Alignment explanation
Indices: 85757204--85757251 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
85757194 TTGTTTTAGG
*
85757204 TATTAAATTTTATAT
1 TATTAAATTTAATAT
85757219 T-TTAAATTTGAATAAT
1 TATTAAATTT-AAT-AT
85757235 TATTAAATTTACATAT
1 TATTAAATTTA-ATAT
85757251 T
1 T
85757252 TAAAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.29
15 3 0.11
16 7 0.25
17 10 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTAAATTTAATAT
Found at i:85758337 original size:37 final size:35
Alignment explanation
Indices: 85758295--85758363 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
85758285 AAAATTTCTT
* *
85758295 TATATATTCTTGAGAATTTTTATAATTTTTTTAAAAA
1 TATATATT-TTG-GAATTTTTATAAATATTTTAAAAA
85758332 TATATATTTTGGAATTTTTATAAATATTTTAA
1 TATATATTTTGGAATTTTTATAAATATTTTAA
85758364 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 19 0.63
36 3 0.10
37 8 0.27
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (35 bp):
TATATATTTTGGAATTTTTATAAATATTTTAAAAA
Found at i:85758360 original size:20 final size:18
Alignment explanation
Indices: 85758335--85758397 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
85758325 TTAAAAATAT
85758335 ATATTTTGGAATTTTTATAA
1 ATATTTT-GAATTTTTA-AA
85758355 ATATTTT-AATTTTTAAA
1 ATATTTTGAATTTTTAAA
*
85758372 ATTATTTTGATTTTTTTAAA
1 A-TATTTTGA-ATTTTTAAA
*
85758392 AAATTT
1 ATATTT
85758398 AAAATTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.08
18 14 0.37
19 5 0.13
20 16 0.42
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATATTTTGAATTTTTAAA
Found at i:85758373 original size:17 final size:19
Alignment explanation
Indices: 85758344--85758391 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
85758334 TATATTTTGG
85758344 AATTTTTATAAA-TATTTT
1 AATTTTTATAAATTATTTT
85758362 AATTTTTA-AAATTATTTT
1 AATTTTTATAAATTATTTT
* *
85758380 GATTTTTTTAAA
1 AATTTTTATAAA
85758392 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTATAAATTATTTT
Found at i:85779061 original size:25 final size:25
Alignment explanation
Indices: 85779033--85779087 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
85779023 GACTTAAAAA
*
85779033 ACATAGAAAAGAACACAACGTAAGC
1 ACATAGAAAAGAACACAAAGTAAGC
*
85779058 ACATAGAAAAGGACACAAAGTAAGC
1 ACATAGAAAAGAACACAAAGTAAGC
85779083 ACATA
1 ACATA
85779088 ATGCTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.09
Consensus pattern (25 bp):
ACATAGAAAAGAACACAAAGTAAGC
Found at i:85779160 original size:24 final size:24
Alignment explanation
Indices: 85779132--85779178 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
85779122 TACCATTTCA
85779132 ATACATAAGCTTAAAATAAACATC
1 ATACATAAGCTTAAAATAAACATC
85779156 ATACATAAGCTTAAAATAAACAT
1 ATACATAAGCTTAAAATAAACAT
85779179 GAAACAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (24 bp):
ATACATAAGCTTAAAATAAACATC
Found at i:85779483 original size:31 final size:31
Alignment explanation
Indices: 85779445--85779507 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
85779435 AATAATATCG
85779445 AATACATGGGAATCTCAAACAATGTGTGCTA
1 AATACATGGGAATCTCAAACAATGTGTGCTA
*
85779476 AATACATGGGAATCTCAGACAATGTGTGCTA
1 AATACATGGGAATCTCAAACAATGTGTGCTA
85779507 A
1 A
85779508 CATATGGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (31 bp):
AATACATGGGAATCTCAAACAATGTGTGCTA
Found at i:85785170 original size:16 final size:17
Alignment explanation
Indices: 85785138--85785176 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
85785128 ACAAAAATTG
85785138 AGAGAATTGAAAGAGTTC
1 AGAGAATTG-AAGAGTTC
85785156 AGAGAATTG-AGAGTTC
1 AGAGAATTGAAGAGTTC
85785172 AGAGA
1 AGAGA
85785177 GAATAGAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.21
Consensus pattern (17 bp):
AGAGAATTGAAGAGTTC
Found at i:85785177 original size:18 final size:18
Alignment explanation
Indices: 85785137--85785180 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
85785127 AACAAAAATT
85785137 GAGAGAATTGAAAGAGTTC
1 GAGAGAATTG-AAGAGTTC
85785156 -AGAGAATTG-AGAGTTC
1 GAGAGAATTGAAGAGTTC
85785172 AGAGAGAAT
1 -GAGAGAAT
85785181 AGAGGCCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.30
18 16 0.70
ACGTcount: A:0.43, C:0.05, G:0.32, T:0.20
Consensus pattern (18 bp):
GAGAGAATTGAAGAGTTC
Found at i:85794065 original size:16 final size:17
Alignment explanation
Indices: 85794044--85794082 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
85794034 TTTTTCTTAA
85794044 GTTTTTAAGATTCAATT
1 GTTTTTAAGATTCAATT
*
85794061 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCAATT
85794078 GTTTT
1 GTTTT
85794083 CCTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCAATT
Found at i:85801690 original size:15 final size:15
Alignment explanation
Indices: 85801672--85801733 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
85801662 TTAATATAAT
85801672 TATTTTATATTAAAA
1 TATTTTATATTAAAA
* *
85801687 TATTTTATTTTACATTA
1 TATTTTATATTA-A-AA
* *
85801704 TATTTTAAAATAAAA
1 TATTTTATATTAAAA
85801719 TATTTTTATATTAAA
1 TA-TTTTATATTAAA
85801734 TTATATTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
15 14 0.39
16 12 0.33
17 10 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTTATATTAAAA
Found at i:85801737 original size:33 final size:32
Alignment explanation
Indices: 85801672--85801740 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
85801662 TTAATATAAT
* * * *
85801672 TATTTTATATTAAAATATTTTATTTTACATTA
1 TATTTTAAAATAAAATATTTTATATTAAATTA
85801704 TATTTTAAAATAAAATATTTTTATATTAAATTA
1 TATTTTAAAATAAAATA-TTTTATATTAAATTA
85801737 TATT
1 TATT
85801741 AAAATATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (32 bp):
TATTTTAAAATAAAATATTTTATATTAAATTA
Found at i:85802081 original size:15 final size:15
Alignment explanation
Indices: 85802054--85802085 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
85802044 AAAAGGTGGC
85802054 ATATCTTTTAAAAAA
1 ATATCTTTTAAAAAA
85802069 ATAT-TTTTAAAAAA
1 ATATCTTTTAAAAAA
85802083 ATA
1 ATA
85802086 GCATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATCTTTTAAAAAA
Found at i:85817578 original size:4 final size:4
Alignment explanation
Indices: 85817569--85817610 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
85817559 GGATGGTATG
85817569 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
85817611 AGTCATTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:85818154 original size:2 final size:2
Alignment explanation
Indices: 85818147--85818175 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
85818137 TTTTGAATTT
85818147 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85818176 TATCATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85818876 original size:36 final size:35
Alignment explanation
Indices: 85818837--85819000 Score: 125
Period size: 30 Copynumber: 4.9 Consensus size: 35
85818827 ACCAAATCTT
85818837 TCCAAGCTCCTGAACGAGATATCAAGTCTTCTCAA
1 TCCAAGCTCCTGAACGAGATATCAAGTCTTCTCAA
*
85818872 TTCCAAGCTCTTGAAC-ACGATATCAAGTC-T-TC--
1 -TCCAAGCTCCTGAACGA-GATATCAAGTCTTCTCAA
* *
85818904 -CCAAGCTCCTGAATGAGATATCAGGTCTTCTCAA
1 TCCAAGCTCCTGAACGAGATATCAAGTCTTCTCAA
* * * **
85818938 CCTCAAGATCCTGAACAAGATATTGAGTC-T-TC--
1 TC-CAAGCTCCTGAACGAGATATCAAGTCTTCTCAA
* **
85818970 -CCAAGCTCCTGAACAAGATATCGGGTCTTCT
1 TCCAAGCTCCTGAACGAGATATCAAGTCTTCT
85819001 TAAGTTTCTA
Statistics
Matches: 105, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
30 45 0.43
31 4 0.04
32 3 0.03
34 4 0.04
35 4 0.04
36 45 0.43
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (35 bp):
TCCAAGCTCCTGAACGAGATATCAAGTCTTCTCAA
Found at i:85818908 original size:30 final size:30
Alignment explanation
Indices: 85818819--85818991 Score: 84
Period size: 30 Copynumber: 5.4 Consensus size: 30
85818809 AGTGGAGAAA
* * * *
85818819 AATCAAATACCAAATCTTTCCAAGCTCCTG
1 AATCAGATATCAAGTCTTCCCAAGCTCCTG
*
85818849 AA-CGAGATATCAAGTCTTCTCAATTCCAAGCTCTTG
1 AATC-AGATATCAAGTC-T-TC----CCAAGCTCCTG
85818885 AA-CACGATATCAAGTCTTCCCAAGCTCCTG
1 AATCA-GATATCAAGTCTTCCCAAGCTCCTG
* * *
85818915 AATGAGATATCAGGTCTTCTCAACCTCAAGATCCTG
1 AATCAGATATCAAGTC-T-T---CC-CAAGCTCCTG
**
85818951 AA-CAAGATATTGAGTCTTCCCAAGCTCCTG
1 AATC-AGATATCAAGTCTTCCCAAGCTCCTG
85818981 AA-CAAGATATC
1 AATC-AGATATC
85818992 GGGTCTTCTT
Statistics
Matches: 112, Mismatches: 15, Indels: 32
0.70 0.09 0.20
Matches are distributed among these distances:
29 1 0.01
30 52 0.46
31 5 0.04
32 2 0.02
34 3 0.03
35 5 0.04
36 44 0.39
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (30 bp):
AATCAGATATCAAGTCTTCCCAAGCTCCTG
Found at i:85818953 original size:66 final size:66
Alignment explanation
Indices: 85818833--85819000 Score: 221
Period size: 66 Copynumber: 2.5 Consensus size: 66
85818823 AAATACCAAA
* * * * * *
85818833 TCTTTCCAAGCTCCTGAACGAGATATCAAGTCTTCTCAATTCCAAGCTCTTGAACACGATATCAA
1 TCTTCCCAAGCTCCTGAACGAGATATCAGGTCTTCTCAACTCCAAGATCCTGAACAAGATATCAA
85818898 G
66 G
* **
85818899 TCTTCCCAAGCTCCTGAATGAGATATCAGGTCTTCTCAAC-CTCAAGATCCTGAACAAGATATTG
1 TCTTCCCAAGCTCCTGAACGAGATATCAGGTCTTCTCAACTC-CAAGATCCTGAACAAGATATCA
85818963 AG
65 AG
* *
85818965 TCTTCCCAAGCTCCTGAACAAGATATCGGGTCTTCT
1 TCTTCCCAAGCTCCTGAACGAGATATCAGGTCTTCT
85819001 TAAGTTTCTA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 88 0.99
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (66 bp):
TCTTCCCAAGCTCCTGAACGAGATATCAGGTCTTCTCAACTCCAAGATCCTGAACAAGATATCAA
G
Found at i:85818999 original size:30 final size:30
Alignment explanation
Indices: 85818833--85818991 Score: 120
Period size: 36 Copynumber: 4.9 Consensus size: 30
85818823 AAATACCAAA
* *
85818833 TCTTTCCAAGCTCCTGAACGAGATATCAAG
1 TCTTCCCAAGCTCCTGAACAAGATATCAAG
* *
85818863 TCTTCTCAATTCCAAGCTCTTGAACACGATATCAAG
1 TC-T-TC----CCAAGCTCCTGAACAAGATATCAAG
** *
85818899 TCTTCCCAAGCTCCTGAATGAGATATCAGG
1 TCTTCCCAAGCTCCTGAACAAGATATCAAG
* **
85818929 TCTTCTCAACCTCAAGATCCTGAACAAGATATTGAG
1 TC-T-T---CC-CAAGCTCCTGAACAAGATATCAAG
85818965 TCTTCCCAAGCTCCTGAACAAGATATC
1 TCTTCCCAAGCTCCTGAACAAGATATC
85818992 GGGTCTTCTT
Statistics
Matches: 100, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
30 43 0.43
31 4 0.04
32 2 0.02
34 3 0.03
35 4 0.04
36 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (30 bp):
TCTTCCCAAGCTCCTGAACAAGATATCAAG
Found at i:85821642 original size:127 final size:125
Alignment explanation
Indices: 85821430--85821731 Score: 426
Period size: 127 Copynumber: 2.4 Consensus size: 125
85821420 GTCCAACGAA
* *
85821430 AAAAT-GAAACTCAGCACGGTAGGGCATGATTCCTCGAATTTCCAAACATTGACATTGCCTTGTT
1 AAAATCGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTT-CAAACATTGACATTGCCTTGTT
* *
85821494 TTAGAATTTATAAAATACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCG
65 TTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCG
* *
85821555 AAAATCGAAACCCAGCACGATAGGGCATGATTCCCCGAATTTCATAACCTTGAACATTGCCTTGT
1 AAAATCGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTTCA-AACATTG-ACATTGCCTTGT
* * * * * *
85821620 TTTAGAATTTGGAAAACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGG
64 TTTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCG
* * *
85821682 GAAATCGAAACCCAGCACGGTAGGGCACGATTTCCCGAATTTCCAAACAT
1 AAAATCGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTT-CAAACAT
85821732 CAAACATTAC
Statistics
Matches: 156, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
125 7 0.04
126 39 0.25
127 108 0.69
128 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (125 bp):
AAAATCGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTTCAAACATTGACATTGCCTTGTTT
TAGAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAACAAACCG
Found at i:85822269 original size:23 final size:23
Alignment explanation
Indices: 85822197--85822281 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
85822187 ATAAAGTGAC
*
85822197 TTAAAATAAATAACATATAACAAT-
1 TTAAAATAAAT-A-ATATAAAAATG
* * *
85822221 TTAAAAT-AA-CATAT-GAAAGG
1 TTAAAATAAATAATATAAAAATG
85822241 TCTAAAATAAATAATATAAAAATG
1 T-TAAAATAAATAATATAAAAATG
*
85822265 TTAAAGTAAATAATATA
1 TTAAAATAAATAATATA
85822282 CATAAAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
19 2 0.04
20 5 0.10
21 6 0.12
22 2 0.04
23 21 0.44
24 12 0.25
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (23 bp):
TTAAAATAAATAATATAAAAATG
Found at i:85822470 original size:3 final size:3
Alignment explanation
Indices: 85822462--85822486 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85822452 CACGTAAATA
85822462 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
85822487 GAGGTAAAAT
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):
AAT
Found at i:85823755 original size:15 final size:15
Alignment explanation
Indices: 85823732--85823768 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
85823722 ATAAATTAGT
85823732 AATAGAAAATAAAAA
1 AATAGAAAATAAAAA
*
85823747 AATATAAAATAAAAA
1 AATAGAAAATAAAAA
85823762 AAT-GAAA
1 AATAGAAA
85823769 TGAAACGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (15 bp):
AATAGAAAATAAAAA
Found at i:85824530 original size:45 final size:45
Alignment explanation
Indices: 85824453--85824912 Score: 209
Period size: 45 Copynumber: 9.8 Consensus size: 45
85824443 AAGATCTGTA
* * * *
85824453 ACTTA-TAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAG
1 ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* *
85824497 ACTTACTATCTTCAGTCTGCTCCACTGCGACTTCAGGGAGATAAG
1 ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * *
85824542 ACTTGTTTTGATCTGCTCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAG
1 AC-----TT-A-CT-ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * * * *
85824595 ACTT-GT-T-TTTA-TCTACTCTACTGCAACTTCAGAGAAATAAG
1 ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * * * *
85824636 ATCTGTAATTTATAACTTCAATCTGTTCTACTGCGACTTCAGGGAAATAAG
1 A-CT-T-A-CTAT--CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * * * * *
85824687 ATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGAGAGATGAG
1 ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * * * * *
85824732 ACTTTTTTTGATCTGCTCTTCAGTCTTCTCCACTACAACTTTAGAGAGATAAG
1 AC-----TT-A-CT-ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * ** * *
85824785 ACTT-GT-T-TT-AATCTATTCTACTGCAACTTCAGAGAAATAAG
1 ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * * *
85824826 ATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAGCTTCAGGGAAATAAG
1 A-CT-T-A-CTAT--CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
* * *
85824877 ATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAG
1 ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAG
85824913 AGAGTTGAGA
Statistics
Matches: 319, Mismatches: 60, Indels: 73
0.71 0.13 0.16
Matches are distributed among these distances:
41 52 0.16
42 9 0.03
43 4 0.01
44 5 0.02
45 89 0.28
46 2 0.01
47 8 0.03
48 4 0.01
49 2 0.01
50 11 0.03
51 57 0.18
52 4 0.01
53 72 0.23
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
ACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAG
Done.