Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 258 of 362
Found at i:87255491 original size:3 final size:3
Alignment explanation
Indices: 87255483--87255507 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
87255473 AACTAACGTG
87255483 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
87255508 AGAAAGTTTG
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:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87257620 original size:46 final size:46
Alignment explanation
Indices: 87257563--87257888 Score: 465
Period size: 46 Copynumber: 7.0 Consensus size: 46
87257553 AGTGTGCTCT
* *
87257563 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
87257609 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
87257655 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
87257701 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
87257747 CTGATATGAAATGTGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG--A----AATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
87257799 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
87257845 ATGACA-GAAAATGAGTAAGACCATATTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
87257889 TCATGTCAAA
Statistics
Matches: 260, Mismatches: 13, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
45 1 0.00
46 213 0.82
48 1 0.00
50 1 0.00
52 44 0.17
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:87257857 original size:98 final size:98
Alignment explanation
Indices: 87257664--87257854 Score: 330
Period size: 98 Copynumber: 2.0 Consensus size: 98
87257654 CCTGATATGA
87257664 AATGTGTAAGACCATGGTTGAAAGACACCATGGAAACCTGATATGAAATGTGTAAGACCATGGTT
1 AATGTGTAAGACCATGGTTGAAAGACACCATGGAAACCTGATATGAAATGTGTAAGACCATGGTT
* *
87257729 GAAAGACACCATGGCAACCTGATATGAAATGTG
66 GAAAGACACCATGGCAACATGACATGAAATGTG
* *
87257762 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTT
1 AATGTGTAAGACCATGGTTGAAAGACACCATGGAAACCTGATATGAAATGTGTAAGACCATGGTT
*
87257827 GAAAGATACCATGGCAACATGACA-GAAA
66 GAAAGACACCATGGCAACATGACATGAAA
87257855 ATGAGTAAGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 4 0.05
98 84 0.95
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (98 bp):
AATGTGTAAGACCATGGTTGAAAGACACCATGGAAACCTGATATGAAATGTGTAAGACCATGGTT
GAAAGACACCATGGCAACATGACATGAAATGTG
Found at i:87260645 original size:29 final size:30
Alignment explanation
Indices: 87260595--87260662 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
87260585 TGGCCCAAGA
* * *
87260595 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
87260625 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
87260655 GCAAATAT
1 GTAAATAT
87260663 TTTAAGGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:87263174 original size:46 final size:46
Alignment explanation
Indices: 87263102--87263421 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
87263092 AGTGTGCTCT
* * *
87263102 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * *
87263148 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
*
87263194 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
87263240 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* *
87263286 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGACACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
*
87263332 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * * * *
87263378 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCA
87263422 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
Found at i:87272330 original size:26 final size:26
Alignment explanation
Indices: 87272301--87272407 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87272291 TGGTACAAAT
87272301 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
87272327 TGATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87272353 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87272379 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87272404 TGAT
1 TGAT
87272408 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 22 0.29
26 53 0.71
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87275273 original size:50 final size:50
Alignment explanation
Indices: 87275198--87275300 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
87275188 TCATCAATAA
*
87275198 TATCTAGGGCCTAATTGCCACTTAAGTCCTTTCTCATTTAGTAATTAAGC
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
87275248 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
87275298 TAT
1 TAT
87275301 TTGATCACCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (50 bp):
TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
Found at i:87275784 original size:297 final size:296
Alignment explanation
Indices: 87275248--87275787 Score: 956
Period size: 297 Copynumber: 1.8 Consensus size: 296
87275238 GTAATTAAGC
*
87275248 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGCTATTTGATCACCTAA
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
* *
87275313 ATGAAATAGTTACCATGTTTTGCACCTTTTTCAATTTAGTCCTTCTTTCTTTAATTAGTTATCTA
66 ATGAAATAATTACCATGTTTTGCACCTTTCTCAATTTAGTCCTTCTTTCTTTAATTAGTTATCTA
* * * *
87275378 AACGATAAAATTTCTTAACCAAAAATTACTAGGACTCTAATGACTCGAAAAATATTCTATAAATC
131 AACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAATA
* *
87275443 AAATCTTTGAGTCGACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCATCACATATATTAT
196 AAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCATCACATATATTAT
87275508 TTTATCATTTTCAATCAAATTATCACTCATCAATAA
261 TTTATCATTTTCAATCAAATTATCACTCATCAATAA
87275544 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
* *
87275609 ATGCAATAATTACCATGTTTTGCACCTTTCTCAATTTTAGTCCTTCTTTCTTTAATTATTTATCT
66 ATGAAATAATTACCATGTTTTGCACCTTTCTCAA-TTTAGTCCTTCTTTCTTTAATTAGTTATCT
87275674 AAACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAAT
130 AAACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAAT
87275739 AAAATCTGTGAGTCAACACAATGGAAATTTGTGGTTC-GTAAACCACTGT
195 AAAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCAG-AAACCACTGT
87275788 CCTGTCACCA
Statistics
Matches: 231, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
296 96 0.42
297 135 0.58
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (296 bp):
TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
ATGAAATAATTACCATGTTTTGCACCTTTCTCAATTTAGTCCTTCTTTCTTTAATTAGTTATCTA
AACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAATA
AAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCATCACATATATTAT
TTTATCATTTTCAATCAAATTATCACTCATCAATAA
Found at i:87278367 original size:79 final size:79
Alignment explanation
Indices: 87278265--87278566 Score: 395
Period size: 79 Copynumber: 3.8 Consensus size: 79
87278255 GCTCCTCGTT
* * *
87278265 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAGCCC
*
87278328 GGATTTAGTAACTCGCA
63 GGATTTAGTATCTCGCA
87278345 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
87278409 ATTAGTATCTCGCA
66 TTTAGTATCTCGCA
*
87278423 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
87278487 ATTTAGTATCTCGCA
65 ATTTAGTATCTCGCA
* * *
87278502 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCACAAATGCCTTCGGGACTTAGCC
87278563 CGGA
62 CGGA
87278567 CATCATTCAA
Statistics
Matches: 202, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
77 2 0.01
78 74 0.37
79 84 0.42
80 33 0.16
81 9 0.04
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTATCTCGCA
Found at i:87278382 original size:39 final size:39
Alignment explanation
Indices: 87278265--87278566 Score: 373
Period size: 39 Copynumber: 7.6 Consensus size: 39
87278255 GCTCCTCGTT
* *
87278265 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
87278305 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
87278345 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
87278384 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
87278423 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
87278462 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
* * *
87278502 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
87278543 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
87278567 CATCATTCAA
Statistics
Matches: 242, Mismatches: 13, Indels: 15
0.90 0.05 0.06
Matches are distributed among these distances:
39 132 0.55
40 100 0.41
41 10 0.04
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:87285830 original size:93 final size:93
Alignment explanation
Indices: 87285718--87285889 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
87285708 CGCCCATAAG
*
87285718 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
87285782 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
87285811 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87285876 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87285890 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87285884 original size:46 final size:46
Alignment explanation
Indices: 87285711--87285886 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
87285701 TGTAACCCGC
* *
87285711 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
87285757 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87285807 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87285850 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87285887 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87288866 original size:27 final size:27
Alignment explanation
Indices: 87288836--87288937 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
87288826 TAAATGAACC
* *
87288836 GCCTTTATGGCATACTATGTATATATG
1 GCCTTTGTGGCATACTCTGTATATATG
*
87288863 GCCTTTGTGGCATACTCTATATATATG
1 GCCTTTGTGGCATACTCTGTATATATG
* *
87288890 GCCTTTGTGGCGTACTCTGTATATATA
1 GCCTTTGTGGCATACTCTGTATATATG
*
87288917 GCCTTTGTGGCGTACTCTGTA
1 GCCTTTGTGGCATACTCTGTA
87288938 CGGATCACCT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
GCCTTTGTGGCATACTCTGTATATATG
Found at i:87288878 original size:54 final size:54
Alignment explanation
Indices: 87288810--87288934 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
87288800 ATCCTGTCAA
* *
87288810 CCTTTGTGTCATACTCTAAATGA-ACCGCCTTTATGGCATACTATGTATATATGG
1 CCTTTGTGGCATACTCTAAAT-ATACCGCCTTTATGGCATACTATGTATATATAG
* ** * * *
87288864 CCTTTGTGGCATACTCTATATATATGGCCTTTGTGGCGTACTCTGTATATATAG
1 CCTTTGTGGCATACTCTAAATATACCGCCTTTATGGCATACTATGTATATATAG
*
87288918 CCTTTGTGGCGTACTCT
1 CCTTTGTGGCATACTCT
87288935 GTACGGATCA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 60 0.98
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (54 bp):
CCTTTGTGGCATACTCTAAATATACCGCCTTTATGGCATACTATGTATATATAG
Found at i:87288948 original size:27 final size:27
Alignment explanation
Indices: 87288836--87288953 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 27
87288826 TAAATGAACC
* * * * * *
87288836 GCCTTTATGGCATACTATGTATATATG
1 GCCTTTGTGGCGTACTCTGTACAGATA
* * * * *
87288863 GCCTTTGTGGCATACTCTATATATATG
1 GCCTTTGTGGCGTACTCTGTACAGATA
* *
87288890 GCCTTTGTGGCGTACTCTGTATATATA
1 GCCTTTGTGGCGTACTCTGTACAGATA
*
87288917 GCCTTTGTGGCGTACTCTGTACGGATCA
1 GCCTTTGTGGCGTACTCTGTACAGAT-A
87288945 -CCTTTGTGG
1 GCCTTTGTGG
87288954 TGTATTTTGT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 80 0.99
28 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (27 bp):
GCCTTTGTGGCGTACTCTGTACAGATA
Found at i:87288949 original size:54 final size:54
Alignment explanation
Indices: 87288837--87288953 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 54
87288827 AAATGAACCG
* * * * **
87288837 CCTTTATGGCATACTATGTATATATGGCCTTTGTGGCATACTCTATATATATGG
1 CCTTTGTGGCATACTATGTATATATAGCCTTTGTGGCATACTCTATACAGATCA
* * * * *
87288891 CCTTTGTGGCGTACTCTGTATATATAGCCTTTGTGGCGTACTCTGTACGGATCA
1 CCTTTGTGGCATACTATGTATATATAGCCTTTGTGGCATACTCTATACAGATCA
87288945 CCTTTGTGG
1 CCTTTGTGG
87288954 TGTATTTTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (54 bp):
CCTTTGTGGCATACTATGTATATATAGCCTTTGTGGCATACTCTATACAGATCA
Found at i:87289808 original size:10 final size:10
Alignment explanation
Indices: 87289795--87289842 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
87289785 AACATACATT
87289795 TCATAAATTA
1 TCATAAATTA
*
87289805 TCATAAACATA
1 TCATAAA-TTA
*
87289816 TACATACATT-
1 T-CATAAATTA
87289826 TCATAAATTA
1 TCATAAATTA
87289836 TCATAAA
1 TCATAAA
87289843 CATATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 7 0.23
10 15 0.48
11 4 0.13
12 5 0.16
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (10 bp):
TCATAAATTA
Found at i:87289821 original size:31 final size:31
Alignment explanation
Indices: 87289780--87289848 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
87289770 CTAACAGAAC
*
87289780 ACATAAACATACATTTCATAAATTATCATAA
1 ACATATACATACATTTCATAAATTATCATAA
87289811 ACATATACATACATTTCATAAATTATCATAA
1 ACATATACATACATTTCATAAATTATCATAA
87289842 ACATATA
1 ACATATA
87289849 ATAAATAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (31 bp):
ACATATACATACATTTCATAAATTATCATAA
Found at i:87299235 original size:55 final size:53
Alignment explanation
Indices: 87299151--87299392 Score: 208
Period size: 55 Copynumber: 4.6 Consensus size: 53
87299141 AGGGTTTAAG
*
87299151 GATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGAAAA
* * ** * *
87299206 GATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGAAAA
* * * * * *
87299261 GGT-CCTATGTAAAACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAA
1 GATACC-ATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGAAAA
* * * *
87299314 GATACCATGTAAGACCATGTCGAGACATGGAAATGGTAAGTTTC--A--AAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGAAAA
* * *
87299363 GATACCACGTAAGACCATGACAAGTCATGG
1 GATACCATGTAAGACCATGCCAAGACATGG
87299393 CAACGGTAAG
Statistics
Matches: 152, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
49 28 0.18
51 1 0.01
52 1 0.01
53 41 0.27
54 14 0.09
55 67 0.44
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGAAAA
Found at i:87299616 original size:16 final size:16
Alignment explanation
Indices: 87299595--87299625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87299585 ATAAACTTGA
87299595 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
87299611 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
87299626 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:87307456 original size:192 final size:192
Alignment explanation
Indices: 87307125--87307515 Score: 701
Period size: 192 Copynumber: 2.0 Consensus size: 192
87307115 GGCTTAGGTC
87307125 GTGGGCCCCACACGGATAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
1 GTGGGCCCCACACGGATAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
*
87307190 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGGCGTGTGGGCCAACATGGGCCATATTG
66 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGACGTGTGGGCCAACATGGGCCATATTG
* *
87307255 TAGGCTTTGGGCCCATTTCCACTGTTTGACTGCTAAGGTCGCATGGGTCGCCTAAGACGGCT
131 TAAGCTTTGGGCCCATTTCCACTGTTTGACTGCTAAGGTCGCATGGGTCGCCTAAGACGACT
* *
87307317 GTGGGCCCCATACGGGTAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
1 GTGGGCCCCACACGGATAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
* *
87307382 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGACGTGTGGGCCGACATGGGCCGTATTG
66 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGACGTGTGGGCCAACATGGGCCATATTG
* *
87307447 TAAGCTTTGGTCCCATTTCCACTGTTTGACTGCTAAGGTCGCATGGGTCGCCTTAGACGACT
131 TAAGCTTTGGGCCCATTTCCACTGTTTGACTGCTAAGGTCGCATGGGTCGCCTAAGACGACT
87307509 GTGGGCC
1 GTGGGCC
87307516 TACTGATGGG
Statistics
Matches: 190, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 190 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (192 bp):
GTGGGCCCCACACGGATAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGACGTGTGGGCCAACATGGGCCATATTG
TAAGCTTTGGGCCCATTTCCACTGTTTGACTGCTAAGGTCGCATGGGTCGCCTAAGACGACT
Found at i:87307706 original size:21 final size:21
Alignment explanation
Indices: 87307677--87307717 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87307667 AAGTGTACTG
*
87307677 TACTAGCAGCTCTGCTGCAAT
1 TACTAGCAGCTCTACTGCAAT
*
87307698 TACTGGCAGCTCTACTGCAA
1 TACTAGCAGCTCTACTGCAA
87307718 ACACTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (21 bp):
TACTAGCAGCTCTACTGCAAT
Found at i:87307723 original size:21 final size:21
Alignment explanation
Indices: 87307682--87307723 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87307672 TACTGTACTA
* **
87307682 GCAGCTCTGCTGCAATTACTG
1 GCAGCTCTACTGCAAACACTG
87307703 GCAGCTCTACTGCAAACACTG
1 GCAGCTCTACTGCAAACACTG
87307724 ATTAATGCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (21 bp):
GCAGCTCTACTGCAAACACTG
Found at i:87307902 original size:34 final size:34
Alignment explanation
Indices: 87307859--87307928 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
87307849 TTTCTGATAC
87307859 TGTTATTGTAATGGGCTAAAGCCCACACTAATAT
1 TGTTATTGTAATGGGCTAAAGCCCACACTAATAT
* * *
87307893 TGTTATTGTAATGGGCTAAGGCCTACACTGATAT
1 TGTTATTGTAATGGGCTAAAGCCCACACTAATAT
87307927 TG
1 TG
87307929 GACTGTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (34 bp):
TGTTATTGTAATGGGCTAAAGCCCACACTAATAT
Found at i:87310106 original size:10 final size:9
Alignment explanation
Indices: 87310083--87310140 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
87310073 CCTCTTCCCC
*
87310083 TTTCTTTGT
1 TTTCTTTTT
87310092 TTTCTTTTT
1 TTTCTTTTT
87310101 TGTTCTTTCTT
1 T-TTCTTT-TT
*
87310112 TTTCTTCTT
1 TTTCTTTTT
* *
87310121 CTTCTTCTT
1 TTTCTTTTT
*
87310130 CTTCTTTTT
1 TTTCTTTTT
87310139 TT
1 TT
87310141 GAAAATGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 28 0.67
10 11 0.26
11 3 0.07
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:87315313 original size:44 final size:42
Alignment explanation
Indices: 87315254--87315373 Score: 159
Period size: 44 Copynumber: 2.8 Consensus size: 42
87315244 CATTTATTTT
* * * *
87315254 AAAAAAGGCCGCTAAAAGCCATGACTTTCAGCGGCGTTTGTAA
1 AAAAAAAGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGT-A
* *
87315297 AAATAAAAGCCGCTAAAAGTCATGGTTTTTAGAGGCGTTTGTA
1 AAA-AAAAGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTA
*
87315340 AAAAAACGCCGCTAAAAGTCATGGCTTTTAGCGG
1 AAAAAAAGCCGCTAAAAGTCATGGCTTTTAGCGG
87315374 ACTTTTAACG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 28 0.42
43 7 0.10
44 32 0.48
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (42 bp):
AAAAAAAGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTA
Found at i:87315540 original size:31 final size:31
Alignment explanation
Indices: 87315505--87315571 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
87315495 CTTCCTGCAT
* *
87315505 TAAAATCCAACCAAATACAATAAATATAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
87315536 TAAAATTCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
87315567 TAAAA
1 TAAAA
87315572 AAATACAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.57, C:0.18, G:0.06, T:0.19
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:87315847 original size:21 final size:21
Alignment explanation
Indices: 87315823--87315898 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
87315813 GCTGCCATCA
87315823 CTGCTGCCTCTGCCTCCCTTG
1 CTGCTGCCTCTGCCTCCCTTG
* * *
87315844 CTGCTGTCGCTGCCTCCCTCG
1 CTGCTGCCTCTGCCTCCCTTG
*
87315865 CTACTGCCGT-TGCCTCCCTCT-
1 CTGCTGCC-TCTGCCTCCCT-TG
87315886 CTGCTGCCTCTGC
1 CTGCTGCCTCTGC
87315899 TTTAAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.01, C:0.47, G:0.20, T:0.32
Consensus pattern (21 bp):
CTGCTGCCTCTGCCTCCCTTG
Found at i:87316335 original size:13 final size:14
Alignment explanation
Indices: 87316310--87316338 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87316300 TGATGAATTG
87316310 AATTAAACAATTAT
1 AATTAAACAATTAT
87316324 AATTAAAC-ATTAT
1 AATTAAACAATTAT
87316337 AA
1 AA
87316339 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:87316874 original size:22 final size:22
Alignment explanation
Indices: 87316826--87316866 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
87316816 TTTCCTAAAA
87316826 TATTG-TTTTTTAAAGTGCTAC
1 TATTGTTTTTTTAAAGTGCTAC
87316847 TATTGTTTTTTTAAAGTGCT
1 TATTGTTTTTTTAAAGTGCT
87316867 TTTATTGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (22 bp):
TATTGTTTTTTTAAAGTGCTAC
Found at i:87321359 original size:9 final size:9
Alignment explanation
Indices: 87321333--87321445 Score: 65
Period size: 9 Copynumber: 12.8 Consensus size: 9
87321323 TAAATTTCGT
*
87321333 AGTTAAGTA
1 AGTTATGTA
87321342 AGCTT-TGTA
1 AG-TTATGTA
87321351 AGTTATGTA
1 AGTTATGTA
*
87321360 AGTTATGTT
1 AGTTATGTA
* *
87321369 A-TGATATA
1 AGTTATGTA
*
87321377 CATTTATGTA
1 -AGTTATGTA
*
87321387 AGGTATGTA
1 AGTTATGTA
87321396 AGTTATGATA
1 AGTTATG-TA
* * *
87321406 TGATATAT-
1 AGTTATGTA
*
87321414 ATTTATGT-
1 AGTTATGTA
87321422 A-TTATGTA
1 AGTTATGTA
*
87321430 AGTTGTGTA
1 AGTTATGTA
87321439 AGTTATG
1 AGTTATG
87321446 ATATGATATA
Statistics
Matches: 78, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
7 6 0.08
8 12 0.15
9 47 0.60
10 13 0.17
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:87321387 original size:36 final size:36
Alignment explanation
Indices: 87321347--87321596 Score: 151
Period size: 36 Copynumber: 7.0 Consensus size: 36
87321337 AAGTAAGCTT
*
87321347 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
* *
87321383 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
* * *
87321419 TGT-A-TTATGTAAGTTGTGTAAGTTATGATATGATATATA
1 TGTAAGTTATGTAAGTTATG--A--TATGATAT-ACATTTA
* * * * ** * **
87321458 TTTAAGATATAT-ATTTATG-TATTTTGTA-AGGTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
* * *
87321491 TATAAGTTATGTAAGTTATTATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
**
87321527 TGTAAGTTAT-T-A--TATGATAT-ATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGATA--TACAT-TTA
* * *
87321561 TGTAAGTTTTGTAAGTTATTATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
87321597 ACATTAAGAT
Statistics
Matches: 164, Mismatches: 32, Indels: 36
0.71 0.14 0.16
Matches are distributed among these distances:
31 3 0.02
32 7 0.04
33 16 0.10
34 31 0.19
35 14 0.09
36 53 0.32
37 4 0.02
38 15 0.09
39 11 0.07
40 6 0.04
41 4 0.02
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGATATACATTTA
Found at i:87321439 original size:43 final size:43
Alignment explanation
Indices: 87321380--87321596 Score: 204
Period size: 43 Copynumber: 4.9 Consensus size: 43
87321370 TGATATACAT
*
87321380 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
* *
87321423 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTAAGATA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG-TA
* * * * * * * *
87321467 TATATTTATGTATTTTGTAAGGTAT-ATAAGTTATGTAAGTTAT-TA
1 T-TATGTAAG--TTATGTAAGTTATGATATGATATAT-ATTTATGTA
* * *
87321512 TATGATATATATTTATGTAAGTTATTATATGATATATATTTATGTA
1 T-T-ATGTA-AGTTATGTAAGTTATGATATGATATATATTTATGTA
* *
87321558 TTATGTAAGTTTTGTAAGTTATTATATGATATATATTTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
87321597 ACATTAAGAT
Statistics
Matches: 141, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 68 0.48
44 7 0.05
45 28 0.20
46 23 0.16
47 15 0.11
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:87321468 original size:13 final size:13
Alignment explanation
Indices: 87321450--87321474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87321440 GTTATGATAT
87321450 GATATATATTTAA
1 GATATATATTTAA
87321463 GATATATATTTA
1 GATATATATTTA
87321475 TGTATTTTGT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GATATATATTTAA
Found at i:87321473 original size:56 final size:52
Alignment explanation
Indices: 87321385--87321530 Score: 166
Period size: 56 Copynumber: 2.7 Consensus size: 52
87321375 TACATTTATG
* * * * * *
87321385 TAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTGTG
1 TAAGTTATGTAAGTTATTATAAGATATATATTTATGTATTATGTAAGGTATA
* * *
87321437 TAAGTTATGATATGATATATATTTAAGATATATATTTATGTATTTTGTAAGGTATA
1 TAAGTTATG-TAAG-T-TAT-TATAAGATATATATTTATGTATTATGTAAGGTATA
*
87321493 TAAGTTATGTAAGTTATTATATGATATATATTTATGTA
1 TAAGTTATGTAAGTTATTATAAGATATATATTTATGTA
87321531 AGTTATTATA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 27 0.35
53 6 0.08
54 2 0.03
55 6 0.08
56 37 0.47
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (52 bp):
TAAGTTATGTAAGTTATTATAAGATATATATTTATGTATTATGTAAGGTATA
Found at i:87321559 original size:22 final size:25
Alignment explanation
Indices: 87321504--87321596 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 25
87321494 AAGTTATGTA
87321504 AGTTATTATATGATATATATTTATGT
1 AGTTATTATATGATATATATTTA-GT
87321530 AAGTTATTATATGATATATATTTA-T
1 -AGTTATTATATGATATATATTTAGT
87321555 -G-TA-T-TATG-TA-AGT-TTT-GT
1 AGTTATTATATGATATA-TATTTAGT
87321573 AAGTTATTATATGATATATATTTA
1 -AGTTATTATATGATATATATTTA
87321597 ACATTAAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
18 5 0.09
19 3 0.05
20 5 0.09
21 3 0.05
22 3 0.05
23 5 0.09
24 3 0.05
25 5 0.09
27 23 0.42
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (25 bp):
AGTTATTATATGATATATATTTAGT
Found at i:87321574 original size:70 final size:70
Alignment explanation
Indices: 87321390--87321596 Score: 266
Period size: 70 Copynumber: 3.0 Consensus size: 70
87321380 TTATGTAAGG
* * *
87321390 TATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATAT
1 TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATAT
87321455 ATA--
66 ATATT
* * * * *
87321458 T-T-TAAGATA-TATAT-TTATGTATTT-TGTAAGGTATATAAGTTATGTAAGTTATTATATGAT
1 TATGTAAGTTATTATATGATATATATTTATGT-A-TTATGTAAGTTATGTAAGTTATTATATGAT
87321518 ATATATT
64 ATATATT
*
87321525 TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATTATATGATAT
1 TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATAT
87321590 ATATT
66 ATATT
87321595 TA
1 TA
87321597 ACATTAAGAT
Statistics
Matches: 116, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
63 3 0.03
64 9 0.08
65 35 0.30
66 6 0.05
67 2 0.02
68 2 0.02
69 6 0.05
70 41 0.35
71 9 0.08
72 3 0.03
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.50
Consensus pattern (70 bp):
TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATAT
ATATT
Found at i:87324093 original size:19 final size:20
Alignment explanation
Indices: 87324059--87324097 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
87324049 AAGAAATTTG
*
87324059 TCTAATATGATTAAAAATAT
1 TCTAAAATGATTAAAAATAT
87324079 TCTAAAATG-TTAAAAATAT
1 TCTAAAATGATTAAAAATAT
87324098 ATATGTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
TCTAAAATGATTAAAAATAT
Found at i:87326247 original size:13 final size:13
Alignment explanation
Indices: 87326229--87326263 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
87326219 TTATCTCTTA
87326229 AAAAATTTAATCT
1 AAAAATTTAATCT
87326242 AAAAATTTAATCT
1 AAAAATTTAATCT
87326255 AAATAATTT
1 AAA-AATTT
87326264 TATTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATTTAATCT
Found at i:87326525 original size:8 final size:7
Alignment explanation
Indices: 87326415--87326612 Score: 59
Period size: 7 Copynumber: 28.3 Consensus size: 7
87326405 ACCTTAAAAT
87326415 CCTAAAC
1 CCTAAAC
*
87326422 CCTATA-
1 CCTAAAC
*
87326428 CATAAAC
1 CCTAAAC
87326435 CCTAAAC
1 CCTAAAC
*
87326442 CCTGAAC
1 CCTAAAC
*
87326449 AC-ATAAC
1 CCTA-AAC
* *
87326456 CATTAATC
1 C-CTAAAC
87326464 CCTAAAC
1 CCTAAAC
*
87326471 CTTAAAC
1 CCTAAAC
*
87326478 CCT-AGC
1 CCTAAAC
87326484 CCTTAAAC
1 CC-TAAAC
** **
87326492 TATAATT
1 CCTAAAC
*
87326499 CATAAAC
1 CCTAAAC
*
87326506 CTTAAAC
1 CCTAAAC
87326513 CCTAAACC
1 CCTAAA-C
*
87326521 CCT-AAT
1 CCTAAAC
* *
87326527 CTTATAC
1 CCTAAAC
87326534 CCTAAAC
1 CCTAAAC
*
87326541 CATAAAC
1 CCTAAAC
* *
87326548 CTTATA-
1 CCTAAAC
*
87326554 CATAAAC
1 CCTAAAC
87326561 CCTAAAC
1 CCTAAAC
*
87326568 CCTAAGCC
1 CCTAA-AC
87326576 CCT-AAC
1 CCTAAAC
87326582 CCGT-AAC
1 CC-TAAAC
*
87326589 CCTTAAC
1 CCTAAAC
*
87326596 CATTAAAC
1 C-CTAAAC
*
87326604 CTTAAAC
1 CCTAAAC
87326611 CC
1 CC
87326613 CAGCCCTTAA
Statistics
Matches: 136, Mismatches: 42, Indels: 26
0.67 0.21 0.13
Matches are distributed among these distances:
6 18 0.13
7 99 0.73
8 18 0.13
9 1 0.01
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.23
Consensus pattern (7 bp):
CCTAAAC
Found at i:87326551 original size:21 final size:21
Alignment explanation
Indices: 87326499--87326568 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
87326489 AACTATAATT
*
87326499 CATAAACCTTAAACCCTAAACC
1 CATAAACCTTATACCCTAAA-C
* *
87326521 CCT-AATCTTATACCCTAAAC
1 CATAAACCTTATACCCTAAAC
*
87326541 CATAAACCTTATA-CATAAAC
1 CATAAACCTTATACCCTAAAC
*
87326561 CCTAAACC
1 CATAAACC
87326569 CTAAGCCCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 16 0.40
21 22 0.55
22 2 0.05
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (21 bp):
CATAAACCTTATACCCTAAAC
Found at i:87326579 original size:42 final size:42
Alignment explanation
Indices: 87326533--87326629 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
87326523 TAATCTTATA
87326533 CCCTAAACCATAAACCTTATA-CA-TAAACCCTAAACCCTAAGC
1 CCCTAAACCATAAACCTTA-ACCATTAAACCCTAAACCC-AAGC
* * * * *
87326575 CCCTAACCCGTAACCCTTAACCATTAAACCTTAAACCCCAGC
1 CCCTAAACCATAAACCTTAACCATTAAACCCTAAACCCAAGC
*
87326617 CCTTAAACCATAA
1 CCCTAAACCATAA
87326630 TTCACAAACA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 31 0.69
43 13 0.29
ACGTcount: A:0.39, C:0.38, G:0.03, T:0.20
Consensus pattern (42 bp):
CCCTAAACCATAAACCTTAACCATTAAACCCTAAACCCAAGC
Found at i:87326845 original size:14 final size:14
Alignment explanation
Indices: 87326818--87326864 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
87326808 ATCTAAACCC
*
87326818 TAAACCCATAATCCT
1 TAAACCC-TAATCCA
*
87326833 TAATCCCTAATCCA
1 TAAACCCTAATCCA
87326847 TAAACCCTGAAT-CA
1 TAAACCCT-AATCCA
87326861 TAAA
1 TAAA
87326865 ACATAAACTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACCCTAATCCA
Found at i:87327440 original size:106 final size:107
Alignment explanation
Indices: 87327254--87327538 Score: 321
Period size: 106 Copynumber: 2.7 Consensus size: 107
87327244 AGATGAAAAG
* * *
87327254 ATTTTTTGCGGCGTTTTTAAAGAAAACGCCGCTATAGATCAGAATTTGCGGCGTTTTCTATAAAA
1 ATTTTTTGCGGCGTTTGTAAAGAAAACGCCGCTAAAGATCAGAATTAGCGGCGTTTTCTATAAAA
* * *
87327319 GCGCCACTAAAAGCTCTACACAAGACGACATCGTTTCACAAA
66 GCGCCACTAAAAGCTCTACACAAGACAACACCATTTCACAAA
* * * *
87327361 ATTTTTTGCGGTGTTTGTAAA-AAAACGCCGCTAAATATCAGTATTAGTGGCGTTTT-TCATAAA
1 ATTTTTTGCGGCGTTTGTAAAGAAAACGCCGCTAAAGATCAGAATTAGCGGCGTTTTCT-ATAAA
* * *
87327424 AGCGCCACTAAAAGCTCTACATAAGACAACGCCATTTCACTAA
65 AGCGCCACTAAAAGCTCTACACAAGACAACACCATTTCACAAA
* * * * * * * *
87327467 ATTTTTTGTGGCGTTT-T--TGAAAACGCTGTTATAGATCAGTATTAGCGGAGGTTTCTA-AAAA
1 ATTTTTTGCGGCGTTTGTAAAGAAAACGCCGCTAAAGATCAGAATTAGCGGCGTTTTCTATAAAA
*
87327528 GCGCTACTAAA
66 GCGCCACTAAA
87327539 GGTGTGCATA
Statistics
Matches: 151, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
103 14 0.09
104 29 0.19
105 3 0.02
106 86 0.57
107 19 0.13
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
ATTTTTTGCGGCGTTTGTAAAGAAAACGCCGCTAAAGATCAGAATTAGCGGCGTTTTCTATAAAA
GCGCCACTAAAAGCTCTACACAAGACAACACCATTTCACAAA
Found at i:87329942 original size:20 final size:22
Alignment explanation
Indices: 87329889--87329944 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
87329879 GTAACTACAC
* * *
87329889 CATACTAGAGGCATCATAGATG
1 CATAATAGAGGCACCAAAGATG
*
87329911 CATAACAGAGGCACCAAAG-TG
1 CATAATAGAGGCACCAAAGATG
87329932 CA-AATAGAGGCAC
1 CATAATAGAGGCAC
87329945 AAGTGTGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 4 0.14
22 15 0.52
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (22 bp):
CATAATAGAGGCACCAAAGATG
Found at i:87331518 original size:126 final size:127
Alignment explanation
Indices: 87331377--87331611 Score: 343
Period size: 131 Copynumber: 1.8 Consensus size: 127
87331367 TTTAAAAAAT
* *
87331377 AGAAAGTTTAGATTTTAACAAA-TAAAAATCTA-TTTTTT-T-ATTTTAAAGAAAAGATTAAATT
1 AGAAAGTTTAAATTTTAA-AAAGTAAAAATCTATTTTTTTATCATTTTAAAGAAAAGATTAAAAT
*
87331438 TTTAAAACAAAGTTTTGATTTTTCTTTCAACTATTTCAAAGTAAAAAATACTGTTTTTTTTAAAG
65 TTTAAAACAAAGTTTTGATTTTTC-TT-AACTATTTCAAAATAAAAAATACTGTTTTTTTTAAAG
* *
87331503 AGAAAGTTTAAATTTTAAAAAGTAAAAATCTATTTTTTTAAGTCATTTTAAAGCAAAGTTTAAAA
1 AGAAAGTTTAAATTTTAAAAAGTAAAAATCTATTTTTTT-A-TCATTTTAAAGAAAAGATTAAAA
*
87331568 TTTTAAAACAAAGTTTTGTTTTTTCTTAACTATTTCAAAATAAA
64 TTTTAAAACAAAGTTTTGATTTTTCTTAACTATTTCAAAATAAA
87331612 GTTTTGATTT
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
125 3 0.03
126 27 0.28
127 6 0.06
129 16 0.16
130 3 0.03
131 42 0.43
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (127 bp):
AGAAAGTTTAAATTTTAAAAAGTAAAAATCTATTTTTTTATCATTTTAAAGAAAAGATTAAAATT
TTAAAACAAAGTTTTGATTTTTCTTAACTATTTCAAAATAAAAAATACTGTTTTTTTTAAAG
Found at i:87341348 original size:42 final size:42
Alignment explanation
Indices: 87341285--87341636 Score: 470
Period size: 42 Copynumber: 8.4 Consensus size: 42
87341275 AAAGAGAACA
* * *
87341285 TTCATTGCATTTAAAGGCCCAGATGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
*
87341327 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTTCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * * * *
87341369 TTCATTGCATTTAGAGGCCTAGGTGTTGAGGTTCATTCATTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* *
87341411 TTCATTGCATTTAGAGACCCAGGTGTGGAGGGCCATTGACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * * * *
87341453 TTCATTGCATTTAGAGGCCCAAGTATAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * * *
87341495 TTCATTGCTTTTAGAGAACCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* **
87341537 TTCATTGCATTTAGAGGCCCAGGTGTTAAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * *
87341579 TTCTTTGCATTTAGAGACCTAGGTGTGGAGGTCCATTGACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
87341621 TTCATTGCATTTAGAG
1 TTCATTGCATTTAGAG
87341637 CGGTCCATTT
Statistics
Matches: 270, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 270 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
Found at i:87341426 original size:84 final size:84
Alignment explanation
Indices: 87341285--87341636 Score: 524
Period size: 84 Copynumber: 4.2 Consensus size: 84
87341275 AAAGAGAACA
* * *
87341285 TTCATTGCATTTAAAGGCCCAGATGTGGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG
* *
87341350 TGTGGAGGTTCATTCACTT
66 TGTGGAGGTCCATTGACTT
* * *
87341369 TTCATTGCATTTAGAGGCCTAGGTGTTGAGGTTCATTCATTTTTCATTGCATTTAGAGACCCAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG
*
87341434 TGTGGAGGGCCATTGACTT
66 TGTGGAGGTCCATTGACTT
* * * * * * *
87341453 TTCATTGCATTTAGAGGCCCAAGTATAGAGGTCCATTTACTTTTCATTGCTTTTAGAGAACCAAG
1 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG
*
87341518 TGTGGAGGTCCATTTACTT
66 TGTGGAGGTCCATTGACTT
* * *
87341537 TTCATTGCATTTAGAGGCCCAGGTGTTAAGGTCCATTCACTTTTCTTTGCATTTAGAGACCTAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG
87341602 TGTGGAGGTCCATTGACTT
66 TGTGGAGGTCCATTGACTT
87341621 TTCATTGCATTTAGAG
1 TTCATTGCATTTAGAG
87341637 CGGTCCATTT
Statistics
Matches: 236, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 236 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (84 bp):
TTCATTGCATTTAGAGGCCCAGGTGTTGAGGTCCATTCACTTTTCATTGCATTTAGAGACCCAGG
TGTGGAGGTCCATTGACTT
Found at i:87341681 original size:16 final size:16
Alignment explanation
Indices: 87341660--87341690 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
87341650 TTTCTAGTTT
87341660 ACTTTTCATTGCATTG
1 ACTTTTCATTGCATTG
87341676 ACTTTTCATTGCATT
1 ACTTTTCATTGCATT
87341691 TAGAGGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (16 bp):
ACTTTTCATTGCATTG
Found at i:87342736 original size:156 final size:150
Alignment explanation
Indices: 87342447--87342845 Score: 454
Period size: 150 Copynumber: 2.6 Consensus size: 150
87342437 TTTAAAAAAA
* * *
87342447 AAAGAGAAAGTTTAGTTTTT-AACAAATAAAAATCTTTTTTTTTGTGATTTTAAAGGAAATTTTA
1 AAAGAGAAAGTTTAATTTTTGAA-AAATAAAAATCTTTTTTTTTGTCATTTTAAAGGAAAGTTTA
* * * *
87342511 AATTTTTAAAACAAAGTTTTGA--TTTTTTTTCAACTATTTCAAAGTAATAACTTTAATCTTTTA
65 AATTTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTACAAAATAATAACTTTAATCATTTA
*
87342574 AGAAAAATAGTGTTTAAAAATAATAAT
130 AGAAAAATAGAGTTT-----T-ATAAT
* *
87342601 AAAGAGAAAGTTTAATTTTTGAAAATTAAAAATTTGTTTTTTTTGGTCATTTTAAAGGAAAGTTT
1 AAAGAGAAAGTTTAATTTTTGAAAAATAAAAATCT-TTTTTTTT-GTCATTTTAAAGGAAAGTTT
*
87342666 AAATTTTTAAAACAAAGTTTTGATTTTTGTTTTTTAACTACTACAAAATAA-AAGCTTTAAT-AT
64 AAATTTTTAAAACAAAGTTTTGATTTTT-TTTTTCAACTACTACAAAATAATAA-CTTTAATCAT
* **
87342729 TTAA-AAAAATAGAGTTTTTTTTT
127 TTAAGAAAAATAGAGTTTTATAAT
* **
87342752 AAA-AAAAAGTTTACA-TTTTGAAAAATAAAAATCTATTTTTTCAAGTCATTTTAAAGGAAAGTT
1 AAAGAGAAAGTTTA-ATTTTTGAAAAATAAAAATCT-TTTTTT-TTGTCATTTTAAAGGAAAGTT
*
87342815 TAAAATTTTAAAACAAAGTTTTGATTTTTTT
63 TAAATTTTTAAAACAAAGTTTTGATTTTTTT
87342846 AACTATTTTG
Statistics
Matches: 215, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
149 2 0.01
150 79 0.37
151 6 0.03
152 1 0.00
154 29 0.13
155 10 0.05
156 41 0.19
157 12 0.06
158 10 0.05
159 25 0.12
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (150 bp):
AAAGAGAAAGTTTAATTTTTGAAAAATAAAAATCTTTTTTTTTGTCATTTTAAAGGAAAGTTTAA
ATTTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTACAAAATAATAACTTTAATCATTTAA
GAAAAATAGAGTTTTATAAT
Found at i:87343348 original size:25 final size:24
Alignment explanation
Indices: 87343320--87343366 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
87343310 TCACTAGCAT
87343320 TTATACA-TTATATATTTAATGTTAC
1 TTATACACTT-TAT-TTTAATGTTAC
*
87343345 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
87343367 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAC
Found at i:87346220 original size:20 final size:20
Alignment explanation
Indices: 87346195--87346240 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
87346185 GTTGGGCATT
87346195 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
87346215 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
87346234 GCCCATA
1 GCCCATA
87346241 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:87346249 original size:19 final size:20
Alignment explanation
Indices: 87346207--87346250 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
87346197 CCATATTAAC
** *
87346207 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
87346227 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
87346246 ACAGT
1 ACAGT
87346251 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:87350174 original size:61 final size:63
Alignment explanation
Indices: 87350041--87350174 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 63
87350031 ACTGGACCTA
*
87350041 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATATGGGCCAT
1 AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATATGGGCCAT
* * * * * * *
87350103 AGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATTAGTGTCAATCTGGGCCGT
1 AGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATATGGGCCAT
87350163 AGCCCTATTACA
1 AGCCCTATTACA
87350175 AGTCAAGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
60 30 0.50
61 22 0.37
62 8 0.13
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (63 bp):
AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATATGGGCCAT
Found at i:87350179 original size:28 final size:27
Alignment explanation
Indices: 87350127--87350180 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
87350117 TCAGAGTATA
**
87350127 CTGGGCCTAGCCCATATTAGTGTCAAT
1 CTGGGCCTAGCCCATATTAAAGTCAAT
87350154 CTGGGCCGTAGCCC-TATTACAAGTCAA
1 CTGGGCC-TAGCCCATATTA-AAGTCAA
87350181 GATATGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATTAAAGTCAAT
Found at i:87350221 original size:20 final size:20
Alignment explanation
Indices: 87350196--87350241 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
87350186 GTTGGGCATT
87350196 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
87350216 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
87350235 GCCCATA
1 GCCCATA
87350242 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:87350250 original size:19 final size:20
Alignment explanation
Indices: 87350208--87350251 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
87350198 CCATATTAAC
** *
87350208 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
87350228 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
87350247 ACAGT
1 ACAGT
87350252 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:87354681 original size:12 final size:12
Alignment explanation
Indices: 87354666--87354699 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
87354656 CAGTAAAAGA
*
87354666 ATGATATGTATC
1 ATGACATGTATC
87354678 ATGACATGTATC
1 ATGACATGTATC
87354690 ATGACATGTA
1 ATGACATGTA
87354700 CATATATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (12 bp):
ATGACATGTATC
Found at i:87365772 original size:45 final size:45
Alignment explanation
Indices: 87365708--87365821 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
87365698 TTATCATAAA
* * * *
87365708 CATGACGAAAACGAGTAAGACTATAGCCGAAAGACGCTATGGCAT
1 CATGACAAAAACAAGTAAGACCATAGCCAAAAGACGCTATGGCAT
* **
87365753 CATGATAAAAACAAGTAAGACCATAGTTAAAAGACGCTATGGCAT
1 CATGACAAAAACAAGTAAGACCATAGCCAAAAGACGCTATGGCAT
***
87365798 CATGACAAAAGTGAGTAAGACCAT
1 CATGACAAAAACAAGTAAGACCAT
87365822 GGCTGGAAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (45 bp):
CATGACAAAAACAAGTAAGACCATAGCCAAAAGACGCTATGGCAT
Found at i:87368294 original size:13 final size:13
Alignment explanation
Indices: 87368254--87368294 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
87368244 AAAACGCCGC
87368254 TAAAAACAGAGCA
1 TAAAAACAGAGCA
**
87368267 -AAAAACACCGC-
1 TAAAAACAGAGCA
87368278 TAAAAACAGAGCA
1 TAAAAACAGAGCA
87368291 TAAA
1 TAAA
87368295 CCGCCGCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.61, C:0.20, G:0.12, T:0.07
Consensus pattern (13 bp):
TAAAAACAGAGCA
Found at i:87368307 original size:25 final size:24
Alignment explanation
Indices: 87368244--87368316 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
87368234 ACGTTTTTGG
*
87368244 AAAACGCCGCTAAAAACAGAGCAA
1 AAAACGCCGCTAAAAACAGAGCAT
*
87368268 AAAACACCGCTAAAAACAGAGCAT
1 AAAACGCCGCTAAAAACAGAGCAT
*
87368292 AAACCGCCGCTAAAAACCAGAGCAT
1 AAAACGCCGCTAAAAA-CAGAGCAT
87368317 TAGCGACGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 36 0.82
25 8 0.18
ACGTcount: A:0.51, C:0.27, G:0.15, T:0.07
Consensus pattern (24 bp):
AAAACGCCGCTAAAAACAGAGCAT
Found at i:87368343 original size:41 final size:41
Alignment explanation
Indices: 87368291--87368470 Score: 252
Period size: 41 Copynumber: 4.4 Consensus size: 41
87368281 AAACAGAGCA
* * *
87368291 TAAACCGCCGCTAAAAACCAGAGCATTAGCGACGCTTTCAG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* **
87368332 TAAAACACCGCTAAAAATTAGAGCATTAGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* * *
87368373 TAAAACGCTGCTAAAAATCGGAGCATTAGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
** *
87368414 TAAAACGCCGCTAAAAACTGGAGCATTAGCGGCACTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
87368455 TAAAACGCCGCTAAAA
1 TAAAACGCCGCTAAAA
87368471 GTCATATAAC
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 125 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
Found at i:87368580 original size:54 final size:55
Alignment explanation
Indices: 87368483--87368597 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 55
87368473 CATATAACCC
* * * *
87368483 CTAAAATCCTAAACCCTCAAAAAATCATAAACACTAATCTATAATCCTTAAAACA
1 CTAAACTCCTAAACCCTCAAAAAATCATAAACACTAAACTATAACCCCTAAAACA
* * * *
87368538 CTAAACTCCTAAA-CCTTAAAAAATCTTAAACCCTAAACTATAACCCCTAAAATA
1 CTAAACTCCTAAACCCTCAAAAAATCATAAACACTAAACTATAACCCCTAAAACA
87368592 CTAAAC
1 CTAAAC
87368598 CCCAAAAAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 40 0.77
55 12 0.23
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (55 bp):
CTAAACTCCTAAACCCTCAAAAAATCATAAACACTAAACTATAACCCCTAAAACA
Found at i:87368815 original size:21 final size:21
Alignment explanation
Indices: 87368789--87368832 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
87368779 GATTATGGGT
*
87368789 TTAGGGAT-TATGGTTTAAGAG
1 TTAGGGATCTA-GGATTAAGAG
*
87368810 TTAGGGGTCTAGGATTAAGAG
1 TTAGGGATCTAGGATTAAGAG
87368831 TT
1 TT
87368833 TATATTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.27, C:0.02, G:0.34, T:0.36
Consensus pattern (21 bp):
TTAGGGATCTAGGATTAAGAG
Found at i:87368864 original size:21 final size:21
Alignment explanation
Indices: 87368802--87368864 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
87368792 GGGATTATGG
*
87368802 TTTAAGAGTTAGGGGTCTAGGA
1 TTTAAGATTTA-GGGTCTAGGA
*** *
87368824 -TTAAGAGTTTATATTTTAGGA
1 TTTAAGA-TTTAGGGTCTAGGA
87368845 TTTAAGATTTAGGGTCTAGG
1 TTTAAGATTTAGGGTCTAGG
87368865 GATTAAGGAT
Statistics
Matches: 30, Mismatches: 9, Indels: 5
0.68 0.20 0.11
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.40
Consensus pattern (21 bp):
TTTAAGATTTAGGGTCTAGGA
Found at i:87368883 original size:43 final size:43
Alignment explanation
Indices: 87368802--87368891 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
87368792 GGGATTATGG
* *
87368802 TTTAAGAGTTAGGGGTCTAGGATTAAGAGTTTATATTTTAGGA
1 TTTAAGAGTTAGGGGTCTAGGATTAAGAGTTAAGATTTTAGGA
* *
87368845 TTTAAGATTTA-GGGTCTAGGGATTAAG-GATTAAGATTTTAGGG
1 TTTAAGAGTTAGGGGTCTA-GGATTAAGAG-TTAAGATTTTAGGA
87368888 TTTA
1 TTTA
87368892 GTTAATTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.40
Consensus pattern (43 bp):
TTTAAGAGTTAGGGGTCTAGGATTAAGAGTTAAGATTTTAGGA
Found at i:87369010 original size:14 final size:14
Alignment explanation
Indices: 87368991--87369029 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
87368981 ATCATTATAG
87368991 TTTAGGGTTTACGA
1 TTTAGGGTTTACGA
* *
87369005 TTTAGGGTATATGA
1 TTTAGGGTTTACGA
*
87369019 TTAAGGGTTTA
1 TTTAGGGTTTA
87369030 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTACGA
Found at i:87369508 original size:19 final size:19
Alignment explanation
Indices: 87369486--87369525 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87369476 CATTGATAAC
*
87369486 AAATAAAAATGAAATACAA
1 AAATAAAAATAAAATACAA
* *
87369505 AAATGAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
87369524 AA
1 AA
87369526 TAGAGATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:87372491 original size:43 final size:43
Alignment explanation
Indices: 87372428--87372605 Score: 248
Period size: 43 Copynumber: 4.1 Consensus size: 43
87372418 GTCTGTTTTA
* *
87372428 TAGCGGCGTTTGTGAAAAAAGTGCCACTAAAAGTCATGGTCTT
1 TAGCGGCGTTTGCGAAAAAAGCGCCACTAAAAGTCATGGTCTT
* * *
87372471 TAGCTGCGTTTGCGAGAAAAGCGCCACTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGCGAAAAAAGCGCCACTAAAAGTCATGGTCTT
* * *
87372514 TAGCGGCGTTTGCCAAAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGCGAAAAAAGCGCCACTAAAAGTCATGGTCTT
* * * *
87372557 TAACGGCGTTTGCGAAAAAAGCGCCGCTAAAAGTTATGATCTT
1 TAGCGGCGTTTGCGAAAAAAGCGCCACTAAAAGTCATGGTCTT
87372600 TAGCGG
1 TAGCGG
87372606 TTTTTTTTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGCGAAAAAAGCGCCACTAAAAGTCATGGTCTT
Found at i:87372550 original size:86 final size:86
Alignment explanation
Indices: 87372401--87372605 Score: 261
Period size: 86 Copynumber: 2.4 Consensus size: 86
87372391 GCATTTATGT
* * ** *
87372401 GAAAAGCGTCGCTAAAGGTC-T-GTTTTATAGCGGCGTTTGTGAAAAAAGTGCCACTAAAAGTCA
1 GAAAAGCGCCGCTAAAGGTCATGGTCTT-TAGCGGCGTTTGCCAAAAAAGCGCCACTAAAAGTCA
* *
87372464 TGGTCTTTAGCTGCGTTTGCGA
65 TGGTCTTTAACGGCGTTTGCGA
* * *
87372486 GAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCGTTTGCCAAAAAAGCGCCGCTAAAGGTCAT
1 GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCCAAAAAAGCGCCACTAAAAGTCAT
87372551 GGTCTTTAACGGCGTTTGCGA
66 GGTCTTTAACGGCGTTTGCGA
* * * *
87372572 AAAAAGCGCCGCTAAAAGTTATGATCTTTAGCGG
1 GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
87372606 TTTTTTTTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
85 18 0.17
86 81 0.79
87 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (86 bp):
GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCCAAAAAAGCGCCACTAAAAGTCAT
GGTCTTTAACGGCGTTTGCGA
Found at i:87377735 original size:19 final size:19
Alignment explanation
Indices: 87377711--87377763 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
87377701 TATTGGAAAA
87377711 AAAAATAAAAAAACGTAA-T
1 AAAAATAAAAAAACG-AAGT
87377730 AAAAATAAAAAATA-GAAGT
1 AAAAATAAAAAA-ACGAAGT
87377749 AAAAATAAAGAAAAC
1 AAAAATAAA-AAAAC
87377764 TAGTTGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.07
19 24 0.80
20 4 0.13
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAAATAAAAAAACGAAGT
Found at i:87377973 original size:11 final size:11
Alignment explanation
Indices: 87377959--87377984 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
87377949 ATAGGCAAAA
87377959 AATATAATAGT
1 AATATAATAGT
87377970 AATATAATAGT
1 AATATAATAGT
87377981 AATA
1 AATA
87377985 ATAGCAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (11 bp):
AATATAATAGT
Found at i:87378103 original size:14 final size:13
Alignment explanation
Indices: 87378084--87378133 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
87378074 ATGATATATT
*
87378084 AAATAACAATAGTA
1 AAATAATAA-AGTA
87378098 AAATAAT-AAGTA
1 AAATAATAAAGTA
87378110 ACAATAATAAAGTA
1 A-AATAATAAAGTA
87378124 TAAATAATAA
1 -AAATAATAA
87378134 TAGTGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.16
13 7 0.22
14 19 0.59
15 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (13 bp):
AAATAATAAAGTA
Found at i:87378141 original size:65 final size:65
Alignment explanation
Indices: 87378019--87378142 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
87378009 ATGAGGATAA
* * * * * *
87378019 AAATAACAATACTAATATATTAAGTTACAATAGTAAAATAAAAATGATGATAATGATGATATATT
1 AAATAACAATACTAAAATAATAAGTAACAATAATAAAATAAAAATAATAATAATGATGATATATT
* * * *
87378084 AAATAACAATAGTAAAATAATAAGTAACAATAATAAAGTATAAATAATAATAGTGATGA
1 AAATAACAATACTAAAATAATAAGTAACAATAATAAAATAAAAATAATAATAATGATGA
87378143 GAATAATAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 49 1.00
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (65 bp):
AAATAACAATACTAAAATAATAAGTAACAATAATAAAATAAAAATAATAATAATGATGATATATT
Found at i:87378159 original size:19 final size:19
Alignment explanation
Indices: 87378126--87378171 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
87378116 ATAAAGTATA
* *
87378126 AATAATAA-TAGTGATGAG
1 AATAATAACGAGTGATAAG
*
87378144 AATAATAACGAGTGATAAT
1 AATAATAACGAGTGATAAG
87378163 AATAATAAC
1 AATAATAAC
87378172 AGTAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.26
Consensus pattern (19 bp):
AATAATAACGAGTGATAAG
Found at i:87378308 original size:3 final size:3
Alignment explanation
Indices: 87378300--87378336 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
87378290 GTACATATAT
87378300 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
87378337 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:87380598 original size:16 final size:16
Alignment explanation
Indices: 87380575--87380610 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
87380565 CCAATGATTG
87380575 ATTTTTTTTATAAGTGA
1 ATTTTTTTTAT-AGTGA
87380592 ATTTTTTTTATAGTGA
1 ATTTTTTTTATAGTGA
87380608 ATT
1 ATT
87380611 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (16 bp):
ATTTTTTTTATAGTGA
Found at i:87384857 original size:83 final size:84
Alignment explanation
Indices: 87384716--87384885 Score: 333
Period size: 83 Copynumber: 2.0 Consensus size: 84
87384706 TAATTGCTCA
87384716 CAACAATTTAGCTGCATATTTGGAATTTTTTTTTCTGATGTTGGTATGGGCATTTATTTCTTTAA
1 CAACAATTTAGCTGCATATTTGGAATTTTTTTTTCTGATGTTGGTATGGGCATTTATTTCTTTAA
87384781 CTTTCGAGCTTTTTACCCC
66 CTTTCGAGCTTTTTACCCC
87384800 CAACAATTTAGCTGCATATTTGGAA-TTTTTTTTCTGATGTTGGTATGGGCATTTATTTCTTTAA
1 CAACAATTTAGCTGCATATTTGGAATTTTTTTTTCTGATGTTGGTATGGGCATTTATTTCTTTAA
87384864 CTTTCGAGCTTTTTACCCC
66 CTTTCGAGCTTTTTACCCC
87384883 CAA
1 CAA
87384886 AATAACATTG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 61 0.71
84 25 0.29
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (84 bp):
CAACAATTTAGCTGCATATTTGGAATTTTTTTTTCTGATGTTGGTATGGGCATTTATTTCTTTAA
CTTTCGAGCTTTTTACCCC
Found at i:87388384 original size:24 final size:24
Alignment explanation
Indices: 87388352--87388400 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
87388342 AGAAAAGAAA
87388352 TGAGGTCACTTTGGATACTATAAT
1 TGAGGTCACTTTGGATACTATAAT
87388376 TGAGGTCACTTTGGATACTATAAT
1 TGAGGTCACTTTGGATACTATAAT
87388400 T
1 T
87388401 TAACTGTCTA
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:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (24 bp):
TGAGGTCACTTTGGATACTATAAT
Found at i:87389227 original size:6 final size:6
Alignment explanation
Indices: 87389216--87389251 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
87389206 TCTACATTCG
*
87389216 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GCTGCT
1 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT
87389252 TTTTCACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.19, G:0.33, T:0.47
Consensus pattern (6 bp):
GTTGCT
Found at i:87390527 original size:21 final size:20
Alignment explanation
Indices: 87390475--87390528 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
87390465 CTCAATCCTC
*
87390475 AATTTCCAATTTTCTATTATA
1 AATTT-CAATTTTCAATTATA
* *
87390496 AATCTTCAATTTTCAATTTTT
1 AAT-TTCAATTTTCAATTATA
87390517 AATTTCGAATTT
1 AATTTC-AATTT
87390529 CTGGTCATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTCAATTTTCAATTATA
Found at i:87393815 original size:37 final size:37
Alignment explanation
Indices: 87393765--87393843 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
87393755 TTATTACGAA
* * *
87393765 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
87393802 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
87393839 GTCTT
1 GTCTT
87393844 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:87394087 original size:49 final size:49
Alignment explanation
Indices: 87393962--87394093 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 49
87393952 CCCTTCGGGA
* * * *
87393962 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGC
* * *
87394009 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGC
87394056 CTTATCACATATATATACACTTTCACATTCATCACATC
1 CTTATCACATATATATACACTTTCACATTCATCACATC
87394094 ACAATTATCC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 1 0.01
47 43 0.60
49 28 0.39
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:87396691 original size:35 final size:37
Alignment explanation
Indices: 87396665--87396783 Score: 95
Period size: 35 Copynumber: 3.2 Consensus size: 37
87396655 AGCACTGGGT
87396665 ACAATTACCATTGGTTAATCCAACTAGAGCTGGGCTC
1 ACAATTACCATTGGTTAATCCAACTAGAGCTGGGCTC
** * *
87396702 ACAATTATTATCGTCGG-TATATCCGACTAGCA-CTGAG-TGC
1 ACAATTACCAT--T-GGTTA-ATCCAACTAG-AGCTGGGCT-C
* *
87396742 A-AA-TACCGTTGGTTCATCCAACTAGAGCTGGGCTC
1 ACAATTACCATTGGTTAATCCAACTAGAGCTGGGCTC
87396777 ACAATTA
1 ACAATTA
87396784 TTATCGTCGG
Statistics
Matches: 61, Mismatches: 10, Indels: 22
0.66 0.11 0.24
Matches are distributed among these distances:
34 1 0.02
35 17 0.28
36 5 0.08
37 11 0.18
38 3 0.05
39 6 0.10
40 17 0.28
41 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (37 bp):
ACAATTACCATTGGTTAATCCAACTAGAGCTGGGCTC
Found at i:87396957 original size:75 final size:75
Alignment explanation
Indices: 87396640--87396929 Score: 388
Period size: 75 Copynumber: 3.9 Consensus size: 75
87396630 CACACAACCT
* * * * * * *
87396640 TCGGTTTATCTGACTAGCACTGGGTACAATTACCATTGGTTAATCCAACTAGAGCTGGGCTCACA
1 TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGATTTATCCAACTAGAGCTGGGCTCACA
87396705 ATTATTATCG
66 ATTATTATCG
* * *
87396715 TCGGTATATCCGACTAGCACTGAGTGCAAATACCGTTGGTTCATCCAACTAGAGCTGGGCTCACA
1 TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGATTTATCCAACTAGAGCTGGGCTCACA
87396780 ATTATTATCG
66 ATTATTATCG
* * * *
87396790 TCGGTATATCCAACTAGCACTAGGTGTAAATATCC-TT-ATTTTATCCAACGAGAGCTGGGCTCA
1 TCGGTATATCCGACTAGCACTGGGTGCAAATA-CCGTTGA-TTTATCCAACTAGAGCTGGGCTCA
*
87396853 CAATTACTATCG
64 CAATTATTATCG
*
87396865 TCGGTATA-CTCGACTAGCACTGGGTGCAATTACCGTTGATTTATCCAACTAGAGCTGGGCTCAC
1 TCGGTATATC-CGACTAGCACTGGGTGCAAATACCGTTGATTTATCCAACTAGAGCTGGGCTCAC
87396929 A
65 A
87396930 TTTAATACTG
Statistics
Matches: 190, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
74 3 0.02
75 184 0.97
76 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (75 bp):
TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGATTTATCCAACTAGAGCTGGGCTCACA
ATTATTATCG
Found at i:87402211 original size:3 final size:3
Alignment explanation
Indices: 87402187--87402231 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
87402177 AATATCCTTG
*
87402187 TTA TTT TTA -TA TTA TTGA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
87402231 T
1 T
87402232 ATATGTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 33 0.89
4 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:87402427 original size:12 final size:11
Alignment explanation
Indices: 87402396--87402455 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 11
87402386 TGTTATATAC
87402396 GTATATATT-T
1 GTATATATTAT
87402406 -TATATATTAT
1 GTATATATTAT
87402416 GTATATTATTAT
1 GTATA-TATTAT
*
87402428 -T-TTTATTA-
1 GTATATATTAT
*
87402436 -TACATATTAT
1 GTATATATTAT
87402446 GTATATATTA
1 GTATATATTA
87402456 AATATCGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.03
9 18 0.45
10 2 0.05
11 13 0.32
12 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:87402518 original size:23 final size:25
Alignment explanation
Indices: 87402477--87402524 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
87402467 ATTCATGTAT
87402477 TATATCATATAAGCATATATCTTTAA
1 TATATCATATAAG-ATATATCTTTAA
*
87402503 TATAT-ATATAAG-TATATTTTTA
1 TATATCATATAAGATATATCTTTA
87402525 TGTAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
25 7 0.33
26 5 0.24
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
TATATCATATAAGATATATCTTTAA
Found at i:87402865 original size:16 final size:16
Alignment explanation
Indices: 87402839--87402878 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
87402829 TTATACGTGT
*
87402839 ATATATATTTTTATATA
1 ATAT-TATTTTCATATA
*
87402856 GTATTATTTTCATATA
1 ATATTATTTTCATATA
87402872 ATATTAT
1 ATATTAT
87402879 ACTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTATTTTCATATA
Found at i:87403062 original size:21 final size:21
Alignment explanation
Indices: 87403029--87403075 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
87403019 ATATATATTG
87403029 TATATGTTCATTTATACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
87403052 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
87403071 TATAT
1 TATAT
87403076 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:87403067 original size:15 final size:15
Alignment explanation
Indices: 87403049--87403082 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
87403039 TTTATACTAT
*
87403049 GTATATATGTATTTA
1 GTATATATATATTTA
*
87403064 GTATGTATATATTTA
1 GTATATATATATTTA
87403079 GTAT
1 GTAT
87403083 TATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:87406300 original size:28 final size:28
Alignment explanation
Indices: 87406268--87406323 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
87406258 GAATGGAAAG
87406268 AAGAAATTAGCAACATCAAATGCGGGAT
1 AAGAAATTAGCAACATCAAATGCGGGAT
87406296 AAGAAATTAGCAACATCAAATGCGGGAT
1 AAGAAATTAGCAACATCAAATGCGGGAT
87406324 GGAATTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.18
Consensus pattern (28 bp):
AAGAAATTAGCAACATCAAATGCGGGAT
Found at i:87414099 original size:25 final size:25
Alignment explanation
Indices: 87414071--87414123 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
87414061 TCCATGACAA
*
87414071 GAAAGTACGGCCAAGAGAATTCCAT
1 GAAAGTACAGCCAAGAGAATTCCAT
* *
87414096 GAAAGTATAGCCACGAGAATTCCAT
1 GAAAGTACAGCCAAGAGAATTCCAT
87414121 GAA
1 GAA
87414124 GGAGGACTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (25 bp):
GAAAGTACAGCCAAGAGAATTCCAT
Found at i:87415457 original size:90 final size:91
Alignment explanation
Indices: 87415308--87415475 Score: 250
Period size: 90 Copynumber: 1.9 Consensus size: 91
87415298 AATTTCTGTT
*
87415308 TTTCAAAAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCGGTTCACATACTGAGGTATT
1 TTTCAAAAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCGCTTCACATACTGAGGTATT
*
87415373 TCCAATTTCTGTTCTTTTAATTTATG
66 TCCAATTACTGTTCTTTTAATTTATG
* * * *
87415399 TTTC-AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACTT-ATATGCTGAGGTAT
1 TTTCAAAAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCG-CTTCACATACTGAGGTAT
*
87415462 TTTCAATTACTGTT
65 TTCCAATTACTGTT
87415476 TGTCAAAAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 63 0.91
91 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (91 bp):
TTTCAAAAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCGCTTCACATACTGAGGTATT
TCCAATTACTGTTCTTTTAATTTATG
Found at i:87415576 original size:13 final size:13
Alignment explanation
Indices: 87415536--87415583 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
87415526 CGCTGAGGTA
87415536 TTTTCAAATTCTG
1 TTTTCAAATTCTG
87415549 TCTTTCAAATTCTG
1 T-TTTCAAATTCTG
* *
87415563 TTTTTAATTTCTG
1 TTTTCAAATTCTG
87415576 TTTTCAAA
1 TTTTCAAA
87415584 AATCAACTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (13 bp):
TTTTCAAATTCTG
Found at i:87415718 original size:14 final size:15
Alignment explanation
Indices: 87415706--87415734 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87415696 GTATTTTCAG
87415706 TTTCTGTTTTTCAAA
1 TTTCTGTTTTTCAAA
87415721 TTTCTG-TTTTCAAA
1 TTTCTGTTTTTCAAA
87415735 AATCAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (15 bp):
TTTCTGTTTTTCAAA
Found at i:87415825 original size:89 final size:87
Alignment explanation
Indices: 87415644--87415897 Score: 291
Period size: 89 Copynumber: 2.9 Consensus size: 87
87415634 CAATTTATAG
* * * *
87415644 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCATGCTGAGGTATTTTCAGTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTAATTTCAATTT
87415709 CTGTTTTTCAAATTTCTGTTTTCA
64 CTGTTTTTCAAATTTCTGTTTTCA
*
87415733 AAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGGTAATTTCAATTTC
*
87415797 TGTTTTT-TAATTTCTGCTTTTCAAA
65 TGTTTTTCAAATTTCTG-TTTTC--A
* * * *
87415822 AAAATCAACTCATATTG-GGGAAGGTGAGTTGAGCTTTGGCTCACACGCTGAGGT-ATTTTAAGT
1 AAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCGG--CACACGCTGAGGTAATTTCAA-T
*
87415885 TTCTGTTTGTCAA
62 TTCTGTTTTTCAA
87415898 GAATCAACTC
Statistics
Matches: 142, Mismatches: 13, Indels: 17
0.83 0.08 0.10
Matches are distributed among these distances:
86 8 0.06
87 32 0.23
88 4 0.03
89 67 0.47
90 8 0.06
91 22 0.15
92 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATTTCAATTTCT
GTTTTTCAAATTTCTGTTTTCA
Found at i:87415925 original size:75 final size:75
Alignment explanation
Indices: 87415824--87415967 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 75
87415814 TTTTCAAAAA
* * *
87415824 AATCAACTCATATTGGGGAAGGTGAGTTGAGCTTTGGCTCACACGCTGAGGTATTTT-AAGTTTC
1 AATCAACTCATATTGGAGAAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA-TTTC
87415888 TGTTTGTCAAG
65 TGTTTGTCAAG
* **
87415899 AATCAACTCATCTTGCGAGAA-GTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTTCAATTTC
1 AATCAACTCATATTG-GAGAAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTC
87415963 TGTTT
65 TGTTT
87415968 TTAATGTCTG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
75 55 0.90
76 6 0.10
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (75 bp):
AATCAACTCATATTGGAGAAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCT
GTTTGTCAAG
Found at i:87417265 original size:16 final size:16
Alignment explanation
Indices: 87417220--87417266 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
87417210 TGGCCGGATT
*
87417220 CCCTCCCTTCTTTCTC
1 CCCTCTCTTCTTTCTC
* *
87417236 CCCTTTCTCCTTTCTC
1 CCCTCTCTTCTTTCTC
*
87417252 CCCTCTCTTTTTTCT
1 CCCTCTCTTCTTTCT
87417267 TTTTTTTTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (16 bp):
CCCTCTCTTCTTTCTC
Found at i:87417935 original size:12 final size:11
Alignment explanation
Indices: 87417904--87417963 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 11
87417894 TGTTATATAC
87417904 GTATATATT-T
1 GTATATATTAT
87417914 -TATATATTAT
1 GTATATATTAT
87417924 GTATATTATTAT
1 GTATA-TATTAT
*
87417936 -T-TTTATTA-
1 GTATATATTAT
*
87417944 -TACATATTAT
1 GTATATATTAT
87417954 GTATATATTA
1 GTATATATTA
87417964 AATATCGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.03
9 18 0.45
10 2 0.05
11 13 0.32
12 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:87418375 original size:16 final size:16
Alignment explanation
Indices: 87418349--87418388 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
87418339 TTATACGTGT
*
87418349 ATATATATTTTTATATA
1 ATAT-TATTTTCATATA
*
87418366 GTATTATTTTCATATA
1 ATATTATTTTCATATA
87418382 ATATTAT
1 ATATTAT
87418389 ACTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTATTTTCATATA
Found at i:87418573 original size:21 final size:21
Alignment explanation
Indices: 87418540--87418586 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
87418530 ATATATATTG
87418540 TATATGTTCATTTATACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
87418563 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
87418582 TATAT
1 TATAT
87418587 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:87418578 original size:15 final size:15
Alignment explanation
Indices: 87418560--87418593 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
87418550 TTTATACTAT
*
87418560 GTATATATGTATTTA
1 GTATATATATATTTA
*
87418575 GTATGTATATATTTA
1 GTATATATATATTTA
87418590 GTAT
1 GTAT
87418594 TATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:87420774 original size:131 final size:131
Alignment explanation
Indices: 87420603--87420859 Score: 388
Period size: 131 Copynumber: 2.0 Consensus size: 131
87420593 TTAGAGAGTA
* * * *
87420603 TGAGTGAAATTCTAAAGGAATCTTCAATCATTTTGGACAAACTAGAAATTGCAACCCAGCACGAT
1 TGAGTAAAATTCTAAAGGAACCTTCAATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
* * * *
87420668 AGGGCCCGATTCTGCAAATTGCCAAATATCGAACATCGCCTTTGTTTAAAGAATTTTTAAAAGAC
66 AGGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAAAGAC
87420733 G
131 G
* * * *
87420734 TGAGTAAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCATGAT
1 TGAGTAAAATTCTAAAGGAACCTTCAATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
**
87420799 AGGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAA
66 AGGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAA
87420860 TGAATAATTA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 112 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
TGAGTAAAATTCTAAAGGAACCTTCAATCATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
AGGGCACGATTCCGCAAATTGCCAAATATCGAACATCGCCTTCGCTTAAAGAATTTTTAAAAGAC
G
Found at i:87424914 original size:28 final size:28
Alignment explanation
Indices: 87424874--87424952 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
87424864 GCAATCAAAT
* * *
87424874 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
87424902 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* * *
87424930 ATGACACGTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
87424953 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:87426833 original size:28 final size:28
Alignment explanation
Indices: 87426802--87427013 Score: 190
Period size: 28 Copynumber: 7.5 Consensus size: 28
87426792 GTGAACATAG
*
87426802 GCACTGTGTGTGTGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* ****
87426830 GCACTGTGTGTGCGAGATCCGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * *
87426858 GGCACTATGTGTACGAGTTCTGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
87426887 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
87426915 GCCACTGTGTGTGCGAGTTCCGTAACCAA
1 G-CACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
87426944 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
87426972 GGCACTGTGTGTGCGAGTTCTGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
87427001 GCACTGTGTGTGC
1 GCACTGTGTGTGC
87427014 AAGATCGGTT
Statistics
Matches: 139, Mismatches: 42, Indels: 6
0.74 0.22 0.03
Matches are distributed among these distances:
28 76 0.55
29 63 0.45
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:87426869 original size:29 final size:29
Alignment explanation
Indices: 87426830--87427043 Score: 164
Period size: 29 Copynumber: 7.4 Consensus size: 29
87426820 CCGTAACCGA
*
87426830 GCACTGTGTGTGCGAGATCCGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * * * ****
87426859 GCACTATGTGTACGAGTTCTGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
87426887 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * * **** *
87426916 CCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
87426944 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ****
87426973 GCACTGTGTGTGCGAGTTCTGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
87427001 GCACTGTGTGTGCAAGATCGGTTGTTGGG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
87427030 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
87427044 AAATGAGATC
Statistics
Matches: 134, Mismatches: 46, Indels: 8
0.71 0.24 0.04
Matches are distributed among these distances:
28 60 0.45
29 67 0.50
31 7 0.05
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:87426869 original size:57 final size:57
Alignment explanation
Indices: 87426800--87427043 Score: 380
Period size: 57 Copynumber: 4.2 Consensus size: 57
87426790 AAGTGAACAT
* *
87426800 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCCGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
87426857 AGGCACTATGTGTACGAGTTCTGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
87426914 AGCCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
87426971 AGGCACTGTGTGTGCGAGTTCTGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
87427028 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
87427044 AAATGAGATC
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
57 163 0.96
59 7 0.04
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:87431398 original size:28 final size:28
Alignment explanation
Indices: 87431358--87431436 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
87431348 GCAATCAAAT
* * *
87431358 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
87431386 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
87431414 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
87431437 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:87433185 original size:133 final size:133
Alignment explanation
Indices: 87432918--87433169 Score: 396
Period size: 133 Copynumber: 1.9 Consensus size: 133
87432908 GGGTGTTACA
* * * * *
87432918 GAAACGAGATCTACAATCTTCAACCTACTCCACTACAGCTTTAGGGAGCTAGGATGATGGTTTAA
1 GAAACAAGATCAACAATCTTCAACCTACTCCACTACAACTTTAGGAAGCTAGGATGATGGCTTAA
* *
87432983 ATCTGCTTTACTGCAACTTCAGAAAGACCAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTC
66 ATCTGCTTCACTGCAACTTCAGAAAGACCAGATTCGCCGTCTTCGATCTACTCCACTACAACTTC
87433048 AGG
131 AGG
* *
87433051 GAAACAAGATCAACAATCTTCAGCCTACTCCACTACAACTTTAGGAAGCTAGGATGGTGGCTTAA
1 GAAACAAGATCAACAATCTTCAACCTACTCCACTACAACTTTAGGAAGCTAGGATGATGGCTTAA
* * *
87433116 ATCTGCTTCACTGCAACTTCAGAAAGGCTAGATTCGCCGTCTTTGATCTACTCC
66 ATCTGCTTCACTGCAACTTCAGAAAGACCAGATTCGCCGTCTTCGATCTACTCC
87433170 GCTGTAACTT
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 107 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (133 bp):
GAAACAAGATCAACAATCTTCAACCTACTCCACTACAACTTTAGGAAGCTAGGATGATGGCTTAA
ATCTGCTTCACTGCAACTTCAGAAAGACCAGATTCGCCGTCTTCGATCTACTCCACTACAACTTC
AGG
Found at i:87437613 original size:17 final size:17
Alignment explanation
Indices: 87437591--87437646 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
87437581 TTGTATGGTA
87437591 TCATTCATAATCTACTT
1 TCATTCATAATCTACTT
* * * *
87437608 TCATTCTTCAT-TAATA
1 TCATTCATAATCTACTT
87437624 TCATTCATAATCTACTT
1 TCATTCATAATCTACTT
87437641 TCATTC
1 TCATTC
87437647 TTCATTGATA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (17 bp):
TCATTCATAATCTACTT
Found at i:87437631 original size:33 final size:33
Alignment explanation
Indices: 87437589--87437668 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
87437579 ATTTGTATGG
87437589 TATCATTCATAATCTACTTTCATTCTTCATTAA
1 TATCATTCATAATCTACTTTCATTCTTCATTAA
*
87437622 TATCATTCATAATCTACTTTCATTCTTCATTGA
1 TATCATTCATAATCTACTTTCATTCTTCATTAA
87437655 TATCATTCATAATC
1 TATCATTCATAATC
87437669 ATTGAGCCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.47
Consensus pattern (33 bp):
TATCATTCATAATCTACTTTCATTCTTCATTAA
Found at i:87437650 original size:20 final size:20
Alignment explanation
Indices: 87437594--87437651 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
87437584 TATGGTATCA
87437594 TTCATAATCTACTTTCATTC
1 TTCATAATCTACTTTCATTC
87437614 TTCATTAA--TA---TCA---
1 TTCA-TAATCTACTTTCATTC
87437627 TTCATAATCTACTTTCATTC
1 TTCATAATCTACTTTCATTC
87437647 TTCAT
1 TTCAT
87437652 TGATATCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 18
0.62 0.00 0.38
Matches are distributed among these distances:
12 3 0.10
13 4 0.14
14 2 0.07
16 3 0.10
17 3 0.10
19 2 0.07
20 9 0.31
21 3 0.10
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCATAATCTACTTTCATTC
Found at i:87445075 original size:131 final size:131
Alignment explanation
Indices: 87444903--87445160 Score: 410
Period size: 131 Copynumber: 2.0 Consensus size: 131
87444893 TTTAGAGAGT
* * *
87444903 ATGAGTGAAATTCTAAAGGAATCTTCGATCATTTTGGACAAACGAGAAATTGCAACCCAGCACGA
1 ATGAGTGAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * *
87444968 TAGGGCACGAT-TCCGTGAATTGCCAAATATCGAACATCGCCTTCGTTTAAAGAATTTTTAAAAG
66 TAGGGCACGATCT-CGCGAATTGCCAAATATCGAACATCGCATTCGCTTAAAGAATTTTTAAAAG
87445032 AC
130 AC
* * *
87445034 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCTAACACGA
1 ATGAGTGAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAACACGA
*
87445099 TAGGGCACGATCTCGCGAATTGCCAAATATCGAACATCGCATTTGCTTAAAGAATTTTTAAA
66 TAGGGCACGATCTCGCGAATTGCCAAATATCGAACATCGCATTCGCTTAAAGAATTTTTAAA
87445161 TGAATAATTA
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
131 115 0.99
132 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (131 bp):
ATGAGTGAAATTCTAAAGGAACCTTCGATCATTTTGAACAAACGAGAAATTGCAACCCAACACGA
TAGGGCACGATCTCGCGAATTGCCAAATATCGAACATCGCATTCGCTTAAAGAATTTTTAAAAGA
C
Found at i:87448267 original size:18 final size:19
Alignment explanation
Indices: 87448228--87448268 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
87448218 AATATATTTG
*
87448228 AAAATATAATAAAAAATTA
1 AAAATATAATAAAAAATAA
87448247 AAAATAT-AT-AAAAATAA
1 AAAATATAATAAAAAATAA
87448264 AAAAT
1 AAAAT
87448269 TTATTGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 2 0.10
19 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATAATAAAAAATAA
Found at i:87450419 original size:30 final size:31
Alignment explanation
Indices: 87450383--87450449 Score: 111
Period size: 29 Copynumber: 2.2 Consensus size: 31
87450373 TTATTATAAA
*
87450383 TTTAAAAAATATTTATTTATTTTTATAT-TT
1 TTTAAAAAATATTTATCTATTTTTATATATT
87450413 TTT-AAAAATATTTATCTATTTTTATATATT
1 TTTAAAAAATATTTATCTATTTTTATATATT
87450443 TTTAAAA
1 TTTAAAA
87450450 TTTATTGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 23 0.68
30 8 0.24
31 3 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTAAAAAATATTTATCTATTTTTATATATT
Found at i:87450436 original size:10 final size:10
Alignment explanation
Indices: 87450394--87450446 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
87450384 TTAAAAAATA
*
87450394 TTTATTTATT
1 TTTATATATT
87450404 TTTATAT-TT
1 TTTATATATT
* * *
87450413 TTTAAAAATA
1 TTTATATATT
*
87450423 TTTATCTATT
1 TTTATATATT
87450433 TTTATATATT
1 TTTATATATT
87450443 TTTA
1 TTTA
87450447 AAATTTATTG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATATATT
Found at i:87450444 original size:29 final size:29
Alignment explanation
Indices: 87450376--87450450 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
87450366 AAATTAATTA
* * *
87450376 TTATAAATTTAAAAAATATTTATTTATTT
1 TTATATATTTTAAAAATATTTATCTATTT
*
87450405 TTATATTTTTTAAAAATATTTATCTATTT
1 TTATATATTTTAAAAATATTTATCTATTT
*
87450434 TTATATATTTTTAAAAT
1 TTATATATTTTAAAAAT
87450451 TTATTGTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATATATTTTAAAAATATTTATCTATTT
Found at i:87457705 original size:22 final size:22
Alignment explanation
Indices: 87457677--87457728 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
87457667 TGGATTTTAC
87457677 TTTTATTTTATTTTCCATCGTA
1 TTTTATTTTATTTTCCATCGTA
*
87457699 TTTTATTTTATTTTCCATCGTG
1 TTTTATTTTATTTTCCATCGTA
87457721 TTTTATTT
1 TTTTATTT
87457729 AAATAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTATTTTATTTTCCATCGTA
Found at i:87462602 original size:21 final size:21
Alignment explanation
Indices: 87462576--87462616 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87462566 ATCTGCTCAA
* *
87462576 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
87462597 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
87462617 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Done.