Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 26 of 153
Found at i:9136777 original size:32 final size:32
Alignment explanation
Indices: 9136736--9136798 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
9136726 TGTCCAGTAT
*
9136736 TGTTTTTAGCTTTTGAATTGAGATTCCATCAC
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCAC
*
9136768 TGTTTTTAGCTTCTGAATTGAGTTTCCATCA
1 TGTTTTTAGCTTCTGAATTGAGATTCCATCA
9136799 ATCTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (32 bp):
TGTTTTTAGCTTCTGAATTGAGATTCCATCAC
Found at i:9138306 original size:300 final size:293
Alignment explanation
Indices: 9137664--9138518 Score: 836
Period size: 300 Copynumber: 2.9 Consensus size: 293
9137654 TTGTTATGGG
* *
9137664 TTCAAATCTCAGCATATACATATTTTTATTAGTTTTTT-AGTGAAAAGACTAAAATACCCTTAAA
1 TTCAAATCTCA-CATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAAA
* * * *
9137728 TAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAATTTTCTAACCGAGTTGTTACTCGGT
65 TAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTGTGACTCGGT
* * * *
9137793 TAAGGGTGACACCGACTCAATAAAATAGTTAAATAATAGCAAGTATAGATATACAACTGATAAAT
130 TAAGGGTGACAACGACTCAATAAAAGAGTTAAATAATAGCAAGTAGAGATATACAACTGATAAAG
* * *
9137858 GTAGTAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAAGTTGTAGTTGAATGGT
195 GTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAACTTGTAGTTGAATGAT
*
9137923 AAATTAAAGGTTTAACTAAAGTAATTGGTGTGAA
260 AAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
* *
9137957 TTCAAATCTCACTAAATTCATATTTTTA-TAGTTTTTTAAAGTGAAAAGACTAAAATACTCTCAA
1 TTCAAATCTCAC-ATATACATATTTTTATTAGTTTTTT-AAGTGAAAAGACTAAAATACTCTCAA
* * *
9138021 ATAATATTACTTATTTTAATTACGAAAGGGCATTCTCGTGACTTCCTAACCAAGTTGATGACTCG
64 ATAATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTG-TGACTCG
* * **
9138086 GTTGAGGGTGACAATGACTCAA-CCAAGAGCTTAAATTATAGTATAG-AAGTAGAGATATACAA-
128 GTTAAGGGTGACAACGACTCAATAAAAGAG-TT-AA--ATA--ATAGCAAGTAGAGATATACAAC
* * * *****
9138148 TCGATGAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAATTTTTTTTTTTAACTT-T
187 T-GATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAA--ATATAAAAAAACTTGT
* * * *
9138212 AGTTGAATGATAAATTAAAGGTTTTATTAATGCAATTGGTGTGGA
249 AGTTGAATGATAAATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
* * * * * *
9138257 TTCAAACTTTGC-CATATGCATATATTTATTGGTTTTTTAAGTGAAAAGACTATAATGCTCTCAA
1 TTCAAA-TCT-CACATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAA
* * * * * *
9138321 ATAATATTACTTATTTTAATTAAATATTATGAAAGGGCATTCTCATAACTTCTTAATCGAGTTTG
64 ATAATATTACTTATTTTAA-T---TA-CA--AAAGGACATTCTCGTAACTTCCTAACCAAG-TT-
* * * * * *
9138386 GTGACGCGATTAAGGGTGACACCAATTCAAT-CAAGAGCTTAAATAATA--ATA-TA-A-ATATA
120 GTGACTCGGTTAAGGGTGACAACGACTCAATAAAAGAG-TTAAATAATAGCA-AGTAGAGATATA
* * * * *
9138445 CAACTAATAGAGGTAATAAATTGTACATAATAAAATTAAAATGTATAAAAATATTAATAAAAAGT
183 CAACTGATAAAGGTAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATA-TAA-AAAAACT
*
9138510 TTTAGTTGA
246 TGTAGTTGA
9138519 TAGAAGTTTT
Statistics
Matches: 462, Mismatches: 69, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
292 10 0.02
293 24 0.05
294 78 0.17
295 27 0.06
296 2 0.00
298 5 0.01
299 58 0.13
300 157 0.34
301 27 0.06
302 4 0.01
303 4 0.01
304 2 0.00
305 3 0.01
307 27 0.06
308 33 0.07
309 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (293 bp):
TTCAAATCTCACATATACATATTTTTATTAGTTTTTTAAGTGAAAAGACTAAAATACTCTCAAAT
AATATTACTTATTTTAATTACAAAAGGACATTCTCGTAACTTCCTAACCAAGTTGTGACTCGGTT
AAGGGTGACAACGACTCAATAAAAGAGTTAAATAATAGCAAGTAGAGATATACAACTGATAAAGG
TAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATAAAAAAACTTGTAGTTGAATGATA
AATTAAAGGTTTAACTAAAGCAATTGGTGTGAA
Found at i:9145864 original size:22 final size:21
Alignment explanation
Indices: 9145835--9145901 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
9145825 TGCACTAATG
9145835 AACAGAGAGCACCGAAGTGCT
1 AACAGAGAGCACCGAAGTGCT
* *
9145856 ATACAGAGAGCACAGATGTGCT
1 A-ACAGAGAGCACCGAAGTGCT
9145878 AATCAGAGAGCACC-AACGTGCT
1 AA-CAGAGAGCACCGAA-GTGCT
9145900 AA
1 AA
9145902 TAATCAGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.13
Consensus pattern (21 bp):
AACAGAGAGCACCGAAGTGCT
Found at i:9152817 original size:3 final size:3
Alignment explanation
Indices: 9152809--9152833 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9152799 TGCACACCAC
9152809 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
9152834 TGCTTTGTTT
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:9161109 original size:11 final size:11
Alignment explanation
Indices: 9161093--9161123 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9161083 ATACCCATAC
9161093 CCCATACCTTG
1 CCCATACCTTG
*
9161104 CCCATACCTTT
1 CCCATACCTTG
9161115 CCCATACCT
1 CCCATACCT
9161124 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:9161696 original size:18 final size:18
Alignment explanation
Indices: 9161667--9161743 Score: 118
Period size: 18 Copynumber: 4.3 Consensus size: 18
9161657 TACGACCGTT
*
9161667 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
* *
9161685 TACGGCATTATTCACGTA
1 TACGGAACTATTCACGTA
*
9161703 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
9161721 TACGGAACTATTCACGTA
1 TACGGAACTATTCACGTA
9161739 TACGG
1 TACGG
9161744 TACTGGGGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (18 bp):
TACGGAACTATTCACGTA
Found at i:9161714 original size:36 final size:36
Alignment explanation
Indices: 9161667--9161747 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
9161657 TACGACCGTT
* *
9161667 TACGGTACTATTCACGTATACGGCATTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
9161703 TACGGTACTATTCACGTATACGGAACTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
9161739 TACGGTACT
1 TACGGTACT
9161748 GGGGATTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGAACTATTCACGTA
Found at i:9169909 original size:124 final size:125
Alignment explanation
Indices: 9169728--9169972 Score: 352
Period size: 124 Copynumber: 2.0 Consensus size: 125
9169718 AAATAGTGGG
** * *
9169728 AAATCGCTTCTACCAAGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGTCGCCTCGTGGACGCGATT
*
9169793 TCGCTACAG-TGGTCATGTAAGAAATGA-TTTTTTTTGACGTTTTCTGAGCAAATAATATA
66 TCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTGACG-TTTCTGAGCAAATAATATA
* * * *
9169852 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCG-CGCTCTTGTGGACGCGAT
1 AAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGTCGC-CTCGTGGACGCGAT
*
9169916 TTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTTGACGTTTCTGAGCAAATA
65 TTCGCTACAGTTGGTCATGTAAGAAATAA-TTTTTTTTTGACGTTTCTGAGCAAATA
9169973 GTGCCAAATC
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
123 2 0.02
124 63 0.59
125 16 0.15
126 14 0.13
127 12 0.11
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (125 bp):
AAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGTCGCCTCGTGGACGCGATT
TCGCTACAGTTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAATATA
Found at i:9179742 original size:22 final size:22
Alignment explanation
Indices: 9179712--9179753 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9179702 ATTTGGAGAT
*
9179712 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
9179734 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
9179754 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:9179761 original size:30 final size:30
Alignment explanation
Indices: 9179725--9179783 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
9179715 TTGAAGGAAA
* *
9179725 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
9179755 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
9179784 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:9179774 original size:52 final size:51
Alignment explanation
Indices: 9179703--9179805 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
9179693 TTAATATGGA
* * *
9179703 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
9179754 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
9179806 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:9179780 original size:22 final size:22
Alignment explanation
Indices: 9179755--9179846 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
9179745 ATTTGAGAGT
9179755 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
9179777 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
9179799 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
9179821 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
9179843 TTGA
1 TTGA
9179847 TATTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.16
22 42 0.68
23 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:9179804 original size:44 final size:44
Alignment explanation
Indices: 9179755--9179846 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
9179745 ATTTGAGAGT
* *
9179755 TTGAGAGAA-TTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTGAGAGAAATTTTGAAGGAAA
*
9179799 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
9179843 TTGA
1 TTGA
9179847 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
Found at i:9190552 original size:30 final size:32
Alignment explanation
Indices: 9190493--9190552 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
9190483 ATATATTATA
* * *
9190493 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
9190525 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
9190553 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:9190552 original size:32 final size:33
Alignment explanation
Indices: 9190479--9190552 Score: 80
Period size: 35 Copynumber: 2.2 Consensus size: 33
9190469 CTTAAAGTTA
* *
9190479 AAATATATATTATAATATTATATCTTAATTATT
1 AAATATATATTATAATATTATATCTTAATAAGT
*
9190512 AAGTATATATATTATATTA-TATAT-TATAATAAGT
1 AA--ATATATATTATAATATTATATCT-TAATAAGT
9190546 AAATATA
1 AAATATA
9190553 ATAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
32 5 0.14
33 3 0.09
34 13 0.37
35 14 0.40
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
AAATATATATTATAATATTATATCTTAATAAGT
Found at i:9192741 original size:133 final size:139
Alignment explanation
Indices: 9192468--9192742 Score: 445
Period size: 145 Copynumber: 2.0 Consensus size: 139
9192458 AATATTACAT
9192468 TAATATATATTATTAGTACAATAGTATAGACGGATTGACAATTTGAGCTACAATATTATGAATAT
1 TAATATATATTATTAGTACAATAGTATAGACGGATTGACAATTTGAGCTACAATATTATGAATAT
*
9192533 TAACTACAATACATAATTTGAGCTACATATTACAGTAATACATTAATATGTATTATTAGGGGCAA
66 TAACTACAATACATAATTTGAGCTACATATTAC----A-ACATTAATA-GCATTATTAGGGGCAA
9192598 AATACCAAAAAAAGG
125 AATACCAAAAAAAGG
9192613 TAATATATATTATTAGTACAATAGTATAGACGGATTGACAATTTGAGCTACAATATTATGAATAT
1 TAATATATATTATTAGTACAATAGTATAGACGGATTGACAATTTGAGCTACAATATTATGAATAT
9192678 TAACTACAATACATAATTTGAGCTACATATTAC-A-A-TAATA-CA-TATT-GGGGCAAAATACC
66 TAACTACAATACATAATTTGAGCTACATATTACAACATTAATAGCATTATTAGGGGCAAAATACC
9192737 AAAAAA
131 AAAAAA
9192743 GCCCTATTTT
Statistics
Matches: 129, Mismatches: 1, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
133 19 0.15
134 4 0.03
135 1 0.01
137 5 0.04
138 1 0.01
139 1 0.01
145 98 0.76
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (139 bp):
TAATATATATTATTAGTACAATAGTATAGACGGATTGACAATTTGAGCTACAATATTATGAATAT
TAACTACAATACATAATTTGAGCTACATATTACAACATTAATAGCATTATTAGGGGCAAAATACC
AAAAAAAGG
Found at i:9194001 original size:44 final size:44
Alignment explanation
Indices: 9193938--9194036 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
9193928 ACTTCTGATC
9193938 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
*
9193982 AGTGATAAGTGGTAGCTTTAGCTTCACTTATCTGATCAGTGACA
1 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
*
9194026 AGTGACAAGTG
1 AGTGATAAGTG
9194037 ATAAGTGATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACA
Found at i:9194081 original size:57 final size:57
Alignment explanation
Indices: 9193970--9194159 Score: 308
Period size: 57 Copynumber: 3.3 Consensus size: 57
9193960 TGCACTTATC
* * *
9193970 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTTCACTTATCTGATCAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAG
* *
9194028 TGACAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
9194085 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
* *
9194142 AGATAAATGATAAGTGAT
1 TGATAAGTGATAAGTGAT
9194160 TCCATGTAAG
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 98 0.80
58 25 0.20
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (57 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
Found at i:9194092 original size:7 final size:7
Alignment explanation
Indices: 9194071--9194107 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
9194061 TACACTTATC
*
9194071 TGATTAG
1 TGATAAG
*
9194078 TGACAAG
1 TGATAAG
9194085 TGATAAG
1 TGATAAG
9194092 TGATAAG
1 TGATAAG
9194099 TGATAAG
1 TGATAAG
9194106 TG
1 TG
9194108 GTAGCTTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:9195800 original size:41 final size:39
Alignment explanation
Indices: 9195755--9195888 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
9195745 ACTTCAAGTC
*
9195755 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATTT
1 GATGAGACACTGGGTGTCAA-TTATTACTTCGGATT-ATCT
* * * *
9195796 GATGATG-CACTAGGTGCCAA-T-TTACTTCGGTTTAGCT
1 GATGA-GACACTGGGTGTCAATTATTACTTCGGATTATCT
* * * * *
9195833 GATGAGACATTGGGTATCAAATTATTACTTTGAATTATCC
1 GATGAGACACTGGGTGTC-AATTATTACTTCGGATTATCT
*
9195873 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
9195889 CCAAACTGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
36 1 0.01
37 14 0.20
38 13 0.18
39 2 0.03
40 24 0.34
41 16 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTATTACTTCGGATTATCT
Found at i:9197527 original size:60 final size:60
Alignment explanation
Indices: 9197437--9197555 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
9197427 ATTTTTGAAA
* * * * **
9197437 TTTTTAGAATTATAATTAAATTGACAAATTTTATAAATGTTGAGGGTTAAATTTATTAAT
1 TTTTTAGAATTATAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAAT
9197497 TTTTTAGAATT-TGAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAA
1 TTTTTAGAATTAT-AACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAA
9197556 ATTTAAAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (60 bp):
TTTTTAGAATTATAACTAAAATGACAAATTTTATAAATATTAACAGTTAAATTTATTAAT
Found at i:9197561 original size:22 final size:21
Alignment explanation
Indices: 9197521--9197576 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
9197511 ACTAAAATGA
9197521 CAAATTTTATAAATATTAACAGT
1 CAAA-TTTATAAATATTAA-AGT
*
9197544 TAAATTTATTAAAT-TTAAAGT
1 CAAATTTA-TAAATATTAAAGT
*
9197565 CAAATTAATAAA
1 CAAATTTATAAA
9197577 ATAGGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 9 0.31
22 8 0.28
23 8 0.28
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (21 bp):
CAAATTTATAAATATTAAAGT
Found at i:9203844 original size:29 final size:28
Alignment explanation
Indices: 9203812--9203872 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
9203802 AAAGGCTGGT
9203812 TTTTTTCAA-AATTTACCGAAATGGGCCGA
1 TTTTTT-AATAATTTACCGAAATGGGCC-A
* *
9203841 TTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
9203869 TTTT
1 TTTT
9203873 CCTCGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCCA
Found at i:9207352 original size:575 final size:575
Alignment explanation
Indices: 9206261--9207410 Score: 2273
Period size: 575 Copynumber: 2.0 Consensus size: 575
9206251 ATGTATCCTA
*
9206261 GTTTATGAGGCTTTCTATGATGAGGCATTTTGCCTGTTTGTTATTATTGTGTCTAACTTTATATC
1 GTTTATGAGGCTTTCTATGATGAGGCATTTTGCCTGTTTGTTATTATTATGTCTAACTTTATATC
9206326 CTCTCTAATGATTGTGGCTTGTATTTGGTAGGGTGACAACTCTTTCATGGATTCAAAGAAGTCTG
66 CTCTCTAATGATTGTGGCTTGTATTTGGTAGGGTGACAACTCTTTCATGGATTCAAAGAAGTCTG
9206391 ATCTTCCAGGATATGCTGTAGGTTCCTTACTTGCTAAGCTCTTTCCTAATTAATATTTGGTGCCT
131 ATCTTCCAGGATATGCTGTAGGTTCCTTACTTGCTAAGCTCTTTCCTAATTAATATTTGGTGCCT
9206456 GTGTGAATAATGTCTATTTTCTTGTAATACTGGCCTGCAACGTGCTGTGCCTAGTTCTGAGAAAC
196 GTGTGAATAATGTCTATTTTCTTGTAATACTGGCCTGCAACGTGCTGTGCCTAGTTCTGAGAAAC
9206521 AATATTGACCTAGGTGATTAACTTACAATGTGTTTTTTTATCCAATGCATATATATATTTATCTA
261 AATATTGACCTAGGTGATTAACTTACAATGTGTTTTTTTATCCAATGCATATATATATTTATCTA
9206586 TTTAACCAGCTTTCAGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGCACTTGAAT
326 TTTAACCAGCTTTCAGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGCACTTGAAT
9206651 TCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTATTAAGGAA
391 TCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTATTAAGGAA
9206716 ACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCTTTTATCTATTTAACAAGCTTTCTAC
456 ACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCTTTTATCTATTTAACAAGCTTTCTAC
9206781 AAGTAAATTTTTCCTTCATCTTGCAGGCACGTGTCTTGTGAGTACATGAATTCAT
521 AAGTAAATTTTTCCTTCATCTTGCAGGCACGTGTCTTGTGAGTACATGAATTCAT
9206836 GTTTATGAGGCTTTCTATGATGAGGCATTTTGCCTGTTTGTTATTATTATGTCTAACTTTATATC
1 GTTTATGAGGCTTTCTATGATGAGGCATTTTGCCTGTTTGTTATTATTATGTCTAACTTTATATC
9206901 CTCTCTAATGATTGTGGCTTGTATTTGGTAGGGTGACAACTCTTTCATGGATTCAAAGAAGTCTG
66 CTCTCTAATGATTGTGGCTTGTATTTGGTAGGGTGACAACTCTTTCATGGATTCAAAGAAGTCTG
9206966 ATCTTCCAGGATATGCTGTAGGTTCCTTACTTGCTAAGCTCTTTCCTAATTAATATTTGGTGCCT
131 ATCTTCCAGGATATGCTGTAGGTTCCTTACTTGCTAAGCTCTTTCCTAATTAATATTTGGTGCCT
*
9207031 GTGTGAATAATGTCTTTTTTCTTGTAATACTGGCCTGCAACGTGCTGTGCCTAGTTCTGAGAAAC
196 GTGTGAATAATGTCTATTTTCTTGTAATACTGGCCTGCAACGTGCTGTGCCTAGTTCTGAGAAAC
9207096 AATATTGACCTAGGTGATTAACTTACAATGTGTTTTTTTATCCAATGCATATATATATTTATCTA
261 AATATTGACCTAGGTGATTAACTTACAATGTGTTTTTTTATCCAATGCATATATATATTTATCTA
*
9207161 TTTAACCAGCTTTCTGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGCACTTGAAT
326 TTTAACCAGCTTTCAGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGCACTTGAAT
9207226 TCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTATTAAGGAA
391 TCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTATTAAGGAA
9207291 ACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCTTTTATCTATTTAACAAGCTTTCTAC
456 ACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCTTTTATCTATTTAACAAGCTTTCTAC
9207356 AAGTAAATTTTTCCTTCATCTTGCAGGCACGTGTCTTGTGAGTACATGAATTCAT
521 AAGTAAATTTTTCCTTCATCTTGCAGGCACGTGTCTTGTGAGTACATGAATTCAT
9207411 CTAAAGACAT
Statistics
Matches: 572, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
575 572 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (575 bp):
GTTTATGAGGCTTTCTATGATGAGGCATTTTGCCTGTTTGTTATTATTATGTCTAACTTTATATC
CTCTCTAATGATTGTGGCTTGTATTTGGTAGGGTGACAACTCTTTCATGGATTCAAAGAAGTCTG
ATCTTCCAGGATATGCTGTAGGTTCCTTACTTGCTAAGCTCTTTCCTAATTAATATTTGGTGCCT
GTGTGAATAATGTCTATTTTCTTGTAATACTGGCCTGCAACGTGCTGTGCCTAGTTCTGAGAAAC
AATATTGACCTAGGTGATTAACTTACAATGTGTTTTTTTATCCAATGCATATATATATTTATCTA
TTTAACCAGCTTTCAGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGCACTTGAAT
TCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTATTAAGGAA
ACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCTTTTATCTATTTAACAAGCTTTCTAC
AAGTAAATTTTTCCTTCATCTTGCAGGCACGTGTCTTGTGAGTACATGAATTCAT
Found at i:9207460 original size:181 final size:174
Alignment explanation
Indices: 9207153--9207503 Score: 479
Period size: 181 Copynumber: 2.0 Consensus size: 174
9207143 CATATATATA
* * * *
9207153 TTTATCTATTTAACCAGCTTTCTGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGC
1 TTTATCTATTTAACAAGCTTTCTACAACTAATATTTTTTTCAGCTTGCACACGTGTCTTGTGAGC
* * * *
9207218 ACTTGAATTCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCATCACCTA
66 ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
* * * *
9207283 TTAAGGAAACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCT
131 TTAA-G-AA-A-ACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
* *
9207331 TTTATCTATTTAACAAGCTTTCTACAAGTAA-ATTTTTCCTTCATCTTGCAGGCACGTGTCTTGT
1 TTTATCTATTTAACAAGCTTTCTACAACTAATATTTTT--TTCAGCTTGCA--CACGTGTCTTGT
* *
9207395 GAGTACATGAATTCATCTAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCA
62 GAGCACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCA
9207460 CCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
127 CCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
9207504 CTTTTTTTGG
Statistics
Matches: 153, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
177 34 0.22
178 28 0.18
179 12 0.08
180 1 0.01
181 78 0.51
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (174 bp):
TTTATCTATTTAACAAGCTTTCTACAACTAATATTTTTTTCAGCTTGCACACGTGTCTTGTGAGC
ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
TTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
Found at i:9216984 original size:81 final size:82
Alignment explanation
Indices: 9216897--9217071 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 82
9216887 GGGGCGAAAT
* *
9216897 TTTTTAGGGGGTC-GGAATTAAATTATAATTTTTATGATTGTAAAAATATAATTATTAAA-GTAT
1 TTTTTAGGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATG-AT
*
9216960 TAACTAAAAAATTTATCA
65 TAAATAAAAAATTTATCA
* *
9216978 TTTTTAGGCGG-CTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTGTTAAATGATT
1 TTTTTAGGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATT
* *
9217042 AAATCAAAATTTTATCA
66 AAATAAAAAATTTATCA
9217059 TTTTTAGGGGGTC
1 TTTTTAGGGGGTC
9217072 AAAATGTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 80 0.96
82 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (82 bp):
TTTTTAGGGGGTCTGAAATTAAATTATAATTTTTACGATTGTAAAAATATAATTATTAAATGATT
AAATAAAAAATTTATCA
Found at i:9217767 original size:31 final size:31
Alignment explanation
Indices: 9217717--9217787 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
9217707 AAAAAAAACT
* *
9217717 AATTTCACT-TTTTTTAAATGTTAATG-GTCA
1 AATTTAACTCTTTTTAAAATGTTAA-GAGTCA
* *
9217747 AATTTGACTCTTTTTAAAATGTTGAGAGTCA
1 AATTTAACTCTTTTTAAAATGTTAAGAGTCA
9217778 AATTTAACTC
1 AATTTAACTC
9217788 AAGAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.26
31 26 0.74
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
AATTTAACTCTTTTTAAAATGTTAAGAGTCA
Found at i:9232040 original size:4 final size:4
Alignment explanation
Indices: 9232031--9232085 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
9232021 GAAATCAATT
9232031 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
9232079 ATAC ATA
1 ATAC ATA
9232086 TAAATGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:9234207 original size:45 final size:45
Alignment explanation
Indices: 9234139--9234232 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
9234129 AACAAATACT
* * *
9234139 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
* * *
9234184 CGGTGGAATCAGCACATAACAACCACCTTACTAATTAATGATGTT
1 CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
9234229 CGGT
1 CGGT
9234233 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAACAACCACCTTACTAATCAATGATGTC
Found at i:9234296 original size:51 final size:51
Alignment explanation
Indices: 9234238--9234374 Score: 204
Period size: 51 Copynumber: 2.7 Consensus size: 51
9234228 TCGGTTCACA
* * *
9234238 TAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATACACG
* * *
9234289 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATACACG
9234340 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
9234375 CACTTTCACT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 2 0.03
51 73 0.95
52 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATACACG
Found at i:9236969 original size:16 final size:15
Alignment explanation
Indices: 9236948--9236989 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
9236938 ATTAACACTA
*
9236948 AAAAATTTAAAATTTT
1 AAAAATCTAAAA-TTT
*
9236964 AAAAATCTAATATTT
1 AAAAATCTAAAATTT
9236979 -AAAATCTAAAA
1 AAAAATCTAAAA
9236990 CAACAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
16 10 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATCTAAAATTT
Found at i:9237532 original size:49 final size:48
Alignment explanation
Indices: 9237432--9237537 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 48
9237422 GGGTGGCCCA
9237432 ACAATGAT-GACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
1 ACAATGATGGACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
* *
9237479 ACAATGATGGA-TTTCACTATTTGCATATTTTATCATCCTGAGT-GTCCTG
1 ACAATGATGGACTTTCACTATTT--ACATTCTATCATCCTGAGTGGTCC-G
9237528 ACAATGATGG
1 ACAATGATGG
9237538 TTTTAAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
47 19 0.36
48 6 0.11
49 28 0.53
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (48 bp):
ACAATGATGGACTTTCACTATTTACATTCTATCATCCTGAGTGGTCCG
Found at i:9241558 original size:2 final size:2
Alignment explanation
Indices: 9241553--9241588 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9241543 TATATGTTTA
9241553 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9241589 AGGAATTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9244023 original size:42 final size:42
Alignment explanation
Indices: 9243943--9244082 Score: 176
Period size: 42 Copynumber: 3.3 Consensus size: 42
9243933 TCCCAGATGT
* *
9243943 GGTCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAAT-ACGATGCCAATGTCCCAGACAG
* *
9243986 GGTCTTACACGTAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAGACAG
*
9244028 GATCTTACACGTAAATCTAAAATA-GATGCCAATGTCCCAGAC-G
1 GGTCTTACACGT-AATC--AAATACGATGCCAATGTCCCAGACAG
9244071 TGGTCTTACACG
1 -GGTCTTACACG
9244083 ATATCACATA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
42 31 0.36
43 22 0.26
44 28 0.33
45 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:9244068 original size:44 final size:42
Alignment explanation
Indices: 9243924--9244082 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 42
9243914 AGCTCGTACA
** ** *
9243924 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAT-ACG
* * *
9243967 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATACG
*
9244009 ATGCCAATGTCCCAGACATGATCTTACACGTAAATCTAAAATA-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATC--AAATACG
*
9244053 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
9244083 ATATCACATA
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
42 31 0.31
43 35 0.35
44 29 0.29
45 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATACG
Found at i:9245175 original size:13 final size:13
Alignment explanation
Indices: 9245157--9245181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9245147 ACAAACGATA
9245157 AAATTTTCACACG
1 AAATTTTCACACG
9245170 AAATTTTCACAC
1 AAATTTTCACAC
9245182 ATTTTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:9245663 original size:20 final size:18
Alignment explanation
Indices: 9245613--9245664 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
9245603 CTACAAGATA
9245613 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
9245630 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
*
9245650 AGTATTAAATTAATA
1 AATATTAAATTAATA
9245665 AAATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:9245724 original size:68 final size:71
Alignment explanation
Indices: 9245580--9245724 Score: 163
Period size: 68 Copynumber: 2.1 Consensus size: 71
9245570 TATTAAATCT
*
9245580 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATATTTATCTA-AAGATAAATATTAAATTAAATTTAATATTAAGATAATC
*** *
9245645 ACTTTAG
65 AAAATAA
** * *
9245652 TATTAAATTAATAAAATATTT-T-T-AAGATACGTATTAAATTAAATTTAATATTAA-ATCTATT
1 TATTAAATTAATAAAATATTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAGAT-AATC
9245713 AAAATAA
65 AAAATAA
9245720 TATTA
1 TATTA
9245725 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
67 2 0.03
68 39 0.62
70 1 0.02
71 1 0.02
72 20 0.32
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (71 bp):
TATTAAATTAATAAAATATTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAGATAATCA
AAATAA
Found at i:9247929 original size:25 final size:25
Alignment explanation
Indices: 9247901--9247987 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 25
9247891 ACAAACTATA
9247901 AACGGGAAGCTCCTTCGAGCTGAAT
1 AACGGGAAGCTCCTTCGAGCTGAAT
*
9247926 AACGGGAAGCT-CTTGCGAGCTGTAT
1 AACGGGAAGCTCCTT-CGAGCTGAAT
* * *
9247951 AACAGGAAGCTCATGCGAGCTGAAT
1 AACGGGAAGCTCCTTCGAGCTGAAT
*
9247976 AACGAGAAGCTC
1 AACGGGAAGCTC
9247988 ATTTGAGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.06
25 49 0.92
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (25 bp):
AACGGGAAGCTCCTTCGAGCTGAAT
Found at i:9258309 original size:47 final size:48
Alignment explanation
Indices: 9258257--9258426 Score: 150
Period size: 47 Copynumber: 3.5 Consensus size: 48
9258247 TGGTTGGACC
* *
9258257 ATGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATAATTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAATTGGGAT
* * *
9258304 ATGGCATC-GATGTGATGTGATTATGAGTTTCCGTATAAGACTATATTTGGGAT
1 ATGGCATCAG-TGTGA--T-A-TGTGA-TTTTCGTATAAGACTATAATTGGGAT
* * ** * *
9258357 ATGGCATTAGTGTGATATGTGCTACT-GTGTAGGACTAT-ATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAAT-TGGGAT
9258404 ATGGCATCAGTGTGATATGTGAT
1 ATGGCATCAGTGTGATATGTGAT
9258427 CCGTATAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
46 1 0.01
47 44 0.45
48 6 0.06
49 3 0.03
50 2 0.02
51 2 0.02
52 4 0.04
53 35 0.36
54 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (48 bp):
ATGGCATCAGTGTGATATGTGATTTTCGTATAAGACTATAATTGGGAT
Found at i:9258371 original size:53 final size:53
Alignment explanation
Indices: 9258265--9258372 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 53
9258255 CCATGGCAAC
* * *
9258265 ATGTGATATGTGATTTTCGTATAAGACCATAATTGGGATATGGCATCGATGTG
1 ATGTGATATGAGATTTCCGTATAAGACCATAATTGGGATATGGCATAGATGTG
* *
9258318 ATGTGATTATGAG-TTTCCGTATAAGACTATATTTGGGATATGGCATTAG-TGTG
1 ATGTGA-TATGAGATTTCCGTATAAGACCATAATTGGGATATGGCA-TAGATGTG
9258371 AT
1 AT
9258373 ATGTGCTACT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 41 0.85
54 7 0.15
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (53 bp):
ATGTGATATGAGATTTCCGTATAAGACCATAATTGGGATATGGCATAGATGTG
Found at i:9258571 original size:33 final size:32
Alignment explanation
Indices: 9258439--9258575 Score: 94
Period size: 33 Copynumber: 4.1 Consensus size: 32
9258429 GTATAAAACT
9258439 ATAGCTGGACTATGGCATTCTGATGATAAGACC
1 ATAGCTGGACTATGGCATTCTGATG-TAAGACC
* ** * * * *
9258472 ATAACTGGGTTATGGCACTATGAACGTAAGATC
1 ATAGCTGGACTATGGCATTCTG-ATGTAAGACC
* * * * * *
9258505 ATGGTTGGATTATGACAGTGTTTATATGTAAGACC
1 ATAGCTGGACTATGGCA-T-TCT-GATGTAAGACC
*
9258540 ATAGCTGGCCTATGGCATTCTGATGATAAGACC
1 ATAGCTGGACTATGGCATTCTGATG-TAAGACC
9258573 ATA
1 ATA
9258576 ACTAAGTTAT
Statistics
Matches: 75, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
32 3 0.04
33 47 0.63
34 3 0.04
35 22 0.29
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (32 bp):
ATAGCTGGACTATGGCATTCTGATGTAAGACC
Found at i:9258632 original size:24 final size:24
Alignment explanation
Indices: 9258595--9258645 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
9258585 TGGCACTACG
9258595 AATGTAAAGAATGAATTAACGGAA
1 AATGTAAAGAATGAATTAACGGAA
* *
9258619 AATGTAAA-AGATGAATTGACGGCA
1 AATGTAAAGA-ATGAATTAACGGAA
9258643 AAT
1 AAT
9258646 TACCCAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.51, C:0.06, G:0.22, T:0.22
Consensus pattern (24 bp):
AATGTAAAGAATGAATTAACGGAA
Found at i:9266813 original size:57 final size:57
Alignment explanation
Indices: 9266736--9266844 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
9266726 GATCCTATCC
*
9266736 TGATATAGCCCTCCCAAAGAATATGTGTGAAAA-AGATCTAGCCCGGACGGGTGATCT
1 TGATATAGCCCTCCCAAAGAATATGTG-GAAAATAGATCTAGCCCAGACGGGTGATCT
* *
9266793 TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATTTAGCCCAGACGGGT
1 TGATATAGCCCTCCCAAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGT
9266845 AATTCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (57 bp):
TGATATAGCCCTCCCAAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGTGATCT
Found at i:9267076 original size:67 final size:67
Alignment explanation
Indices: 9266968--9267102 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
9266958 TGAATTTATA
* * *
9266968 TTACAGGGGATTTAGTCTGGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGGGAGTGTGCTC
1 TTACAGGGGATTTAGCCTAGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
9267033 TC
66 TC
* * *
9267035 TTACAGGGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTTGCGAGAGTGTGCTC
1 TTACAGGGGATTTAGCCTAGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
9267100 TC
66 TC
9267102 T
1 T
9267103 GAATTGGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (67 bp):
TTACAGGGGATTTAGCCTAGACTGGTAATCCCACTGTAAGAAATGAGATTAGCGAGAGTGTGCTC
TC
Found at i:9283870 original size:18 final size:18
Alignment explanation
Indices: 9283849--9283887 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
9283839 TATATCTATT
9283849 ATACATTATAAACTATAA
1 ATACATTATAAACTATAA
9283867 ATACATTATAAACTATAA
1 ATACATTATAAACTATAA
9283885 ATA
1 ATA
9283888 TATCAAAATT
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:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
ATACATTATAAACTATAA
Found at i:9285491 original size:41 final size:41
Alignment explanation
Indices: 9285429--9285744 Score: 569
Period size: 41 Copynumber: 7.7 Consensus size: 41
9285419 CTTAATTTAA
* *
9285429 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
9285471 CAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
9285512 TAGATCACCGGCACTTAGCCTGCTAGGTTCATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
9285553 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
9285594 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
9285635 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
9285676 CAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
9285717 CAGATCACCGGCACTTAGCCTGCTAGGT
1 CAGATCACCGGCACTTAGCCTGCTAGGT
9285745 ATAGTCTGAA
Statistics
Matches: 264, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
41 261 0.99
42 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:9286850 original size:43 final size:43
Alignment explanation
Indices: 9286789--9286873 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
9286779 AAAATACATA
9286789 AATGGGAAAATTACCATTTTGCCCCTAACATTTTACACTTTTC
1 AATGGGAAAATTACCATTTTGCCCCTAACATTTTACACTTTTC
*
9286832 AATGGGGAAATTACCATTTTGCCCCTAACATTTTACACTTTT
1 AATGGGAAAATTACCATTTTGCCCCTAACATTTTACACTTTT
9286874 TGCAATTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (43 bp):
AATGGGAAAATTACCATTTTGCCCCTAACATTTTACACTTTTC
Found at i:9295603 original size:23 final size:22
Alignment explanation
Indices: 9295577--9295620 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9295567 AAAACTTCAC
9295577 CACCAATCAAATCCTAGACCTTT
1 CACCAATCAAATCCTAG-CCTTT
* *
9295600 CACCCATCACATCCTAGCCTT
1 CACCAATCAAATCCTAGCCTT
9295621 CTCTTTACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.41, G:0.05, T:0.25
Consensus pattern (22 bp):
CACCAATCAAATCCTAGCCTTT
Found at i:9314781 original size:20 final size:19
Alignment explanation
Indices: 9314740--9314782 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
9314730 TATTTTTTAC
*
9314740 TTTTTATTTTTAAAATATT
1 TTTTTATTTTTAAAATAAT
9314759 TTTTTATTTTTAAAATAAAT
1 TTTTTATTTTTAAAAT-AAT
9314779 TTTT
1 TTTT
9314783 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTATTTTTAAAATAAT
Found at i:9325909 original size:21 final size:21
Alignment explanation
Indices: 9325863--9325909 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
9325853 ATTTACAACT
*
9325863 TTATTTTTAGAAATTTAATCC
1 TTATTTTTAGAAATTTAATCA
* *
9325884 CTATTTCTTAGACATTTAAT-A
1 TTATTT-TTAGAAATTTAATCA
9325905 TTATT
1 TTATT
9325910 AAATTACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (21 bp):
TTATTTTTAGAAATTTAATCA
Found at i:9330469 original size:30 final size:30
Alignment explanation
Indices: 9330433--9330498 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
9330423 TGTTAATCGA
** * *
9330433 TAAAAAATTGTAAA-AATTTATGAAAATTAT
1 TAAAAAATACTAAATAA-TTATAAAAATAAT
9330463 TAAAAAATACTAAATAATTATAAAAATAAT
1 TAAAAAATACTAAATAATTATAAAAATAAT
9330493 TAAAAA
1 TAAAAA
9330499 GTGGTCTCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
TAAAAAATACTAAATAATTATAAAAATAAT
Found at i:9330696 original size:29 final size:29
Alignment explanation
Indices: 9330640--9330695 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
9330630 GTTGTTGAAA
*
9330640 TTTATAAAAAAATGTAATATATTTAAAAT
1 TTTATAAAAAAATGTAATAAATTTAAAAT
9330669 TTTATAAAAAAAT-TAA-AAATTATAAAA
1 TTTATAAAAAAATGTAATAAATT-TAAAA
9330696 ACATATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 8 0.32
29 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTATAAAAAAATGTAATAAATTTAAAAT
Found at i:9342354 original size:40 final size:39
Alignment explanation
Indices: 9342256--9342478 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
9342246 TCCTCGTTCA
* * ** * *
9342256 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
9342295 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
9342334 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
9342374 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
9342414 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
9342455 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
9342479 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:9342412 original size:80 final size:79
Alignment explanation
Indices: 9342254--9342478 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
9342244 GCTCCTCGTT
* * ** * *
9342254 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
9342319 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
9342333 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
9342398 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
9342413 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
9342476 GGA
63 GGA
9342479 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:9342478 original size:120 final size:119
Alignment explanation
Indices: 9342256--9342478 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
9342246 TCCTCGTTCA
* * *
9342256 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
9342321 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
9342375 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
9342439 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
9342479 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:9347644 original size:21 final size:21
Alignment explanation
Indices: 9347620--9347682 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
9347610 CAAATATAAT
9347620 TTGGGAAAACATAAAATTGAC
1 TTGGGAAAACATAAAATTGAC
** *
9347641 TTGGTTAAA-ATATAA-T-A-
1 TTGGGAAAACATAAAATTGAC
9347658 -TGGGAAAACATAAAATTGAC
1 TTGGGAAAACATAAAATTGAC
9347678 TTGGG
1 TTGGG
9347683 TTAGTCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 6 0.19
17 5 0.16
18 2 0.06
19 2 0.06
20 5 0.16
21 11 0.35
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (21 bp):
TTGGGAAAACATAAAATTGAC
Found at i:9347652 original size:37 final size:37
Alignment explanation
Indices: 9347611--9347681 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
9347601 AAAATATTTC
*
9347611 AAATATAATTTGGGAAAACATAAAATTGACTTGGTTA
1 AAATATAATATGGGAAAACATAAAATTGACTTGGTTA
9347648 AAATATAATATGGGAAAACATAAAATTGACTTGG
1 AAATATAATATGGGAAAACATAAAATTGACTTGG
9347682 GTTAGTCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (37 bp):
AAATATAATATGGGAAAACATAAAATTGACTTGGTTA
Found at i:9348729 original size:46 final size:46
Alignment explanation
Indices: 9348679--9349716 Score: 1824
Period size: 46 Copynumber: 22.7 Consensus size: 46
9348669 TGCCATAGTG
* * * * * *
9348679 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TCTCATATCAGGTTACCATGGTA
** * * * ** *
9348725 TCTTTCAACCATGGTCTTATTCTTTTCATGTCATATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
*
9348771 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
*
9348817 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9348855 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9348901 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9348947 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9348993 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349039 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349085 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349131 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349177 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349223 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349269 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349315 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349361 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349407 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349453 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349499 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349545 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
9349591 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
* **
9349637 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
*
9349683 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATCTCATATCAG
9349717 AGAGCACACT
Statistics
Matches: 968, Mismatches: 15, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
38 33 0.03
39 1 0.00
40 3 0.00
41 1 0.00
43 1 0.00
44 3 0.00
45 5 0.01
46 921 0.95
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTA
Found at i:9351818 original size:24 final size:24
Alignment explanation
Indices: 9351782--9351837 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
9351772 TTCTTTCTTT
*
9351782 ATATACTAATAAAACAATAATAAA
1 ATATATTAATAAAACAATAATAAA
* ** *
9351806 ATATATTATTAAAGTATTAATAAA
1 ATATATTAATAAAACAATAATAAA
9351830 ATAATATT
1 AT-ATATT
9351838 TATCTAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
ATATATTAATAAAACAATAATAAA
Found at i:9354134 original size:88 final size:88
Alignment explanation
Indices: 9354023--9354239 Score: 251
Period size: 88 Copynumber: 2.4 Consensus size: 88
9354013 CTTAAGGGTG
* * *
9354023 CAAAAA-GCCCTCAAATTTTTTTCAAAAAAAGTAATTAAGC-CTCTAT-TTTTGTTGCACTCATT
1 CAAAAAGGCCCTCAAA-CTTTTTCAAAAAAAGCAATTAAGCTC-CTATCTTTT-TTGCACTCAAT
* *
9354085 TGGATACTTGAACTTTTAAAATACAT
63 TGGATACTTAAACTTTCAAAATACAT
* *
9354111 CAAAAAGGCCCTCAAACTTTTTCAAAAGAAGCAACTAAGCTCCTATCTTTTTTGCACTCAATTGG
1 CAAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTATCTTTTTTGCACTCAATTGG
* * *
9354176 GTACTTAAACTTTCAGAATGCAT
66 ATACTTAAACTTTCAAAATACAT
** *
9354199 CAAAAAGAACCTCAAACGTTTTCAAGAAAAAAGCAATTAAG
1 CAAAAAGGCCCTCAAACTTTTTC-A-AAAAAAGCAATTAAG
9354240 TCCCTGCTTT
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
88 81 0.74
89 15 0.14
90 13 0.12
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (88 bp):
CAAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTATCTTTTTTGCACTCAATTGG
ATACTTAAACTTTCAAAATACAT
Found at i:9354390 original size:20 final size:19
Alignment explanation
Indices: 9354347--9354395 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
9354337 AAAATTTATT
9354347 AAAATT-TAGAAAAAATATA
1 AAAATTGTA-AAAAAATATA
*
9354366 AAAATTGTAAAAATATATAA
1 AAAATTGTAAAAAAATAT-A
9354386 AAAATTGTAA
1 AAAATTGTAA
9354396 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAATTGTAAAAAAATATA
Found at i:9354442 original size:19 final size:17
Alignment explanation
Indices: 9354403--9354454 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
9354393 TAATTTTTTT
9354403 AAAAATCATA-AAAATTA
1 AAAAAT-ATATAAAATTA
9354420 AAAAATATATAGAAATATA
1 AAAAATATATA-AAAT-TA
*
9354439 AAAAATTTATAAAATT
1 AAAAATATATAAAATT
9354455 TTATAAAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 3 0.10
17 8 0.26
18 8 0.26
19 12 0.39
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATATATAAAATTA
Found at i:9354452 original size:10 final size:10
Alignment explanation
Indices: 9354335--9354461 Score: 70
Period size: 10 Copynumber: 13.4 Consensus size: 10
9354325 ATTCAAATAT
9354335 TAAAAATTTA
1 TAAAAATTTA
*
9354345 TTAAAATTTA
1 TAAAAATTTA
* *
9354355 GAAAAA-ATA
1 TAAAAATTTA
*
9354364 TAAAAA-TTG
1 TAAAAATTTA
*
9354373 TAAAAATATA
1 TAAAAATTTA
* *
9354383 TAAAAAATTG
1 TAAAAATTTA
** *
9354393 T-AATTTTTT
1 TAAAAATTTA
*
9354402 TAAAAA-TCA
1 TAAAAATTTA
9354411 TAAAAA-TTA
1 TAAAAATTTA
*
9354420 -AAAAATATA
1 TAAAAATTTA
* *
9354429 TAGAAATATA
1 TAAAAATTTA
9354439 -AAAAATTTA
1 TAAAAATTTA
*
9354448 TAAAATTTTA
1 TAAAAATTTA
9354458 TAAA
1 TAAA
9354462 GTCGTAAGAA
Statistics
Matches: 86, Mismatches: 26, Indels: 10
0.70 0.21 0.08
Matches are distributed among these distances:
8 5 0.06
9 37 0.43
10 44 0.51
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:9354497 original size:19 final size:19
Alignment explanation
Indices: 9354414--9354499 Score: 52
Period size: 19 Copynumber: 4.5 Consensus size: 19
9354404 AAAATCATAA
* *
9354414 AAAT-TAAAAAATATATAG
1 AAATATAAAAAATGTAAAG
*
9354432 AAATATAAAAAATTTATAA-
1 AAATATAAAAAATGTA-AAG
* * * *
9354451 AATTTTATAAAGTCGT-AAG
1 AAATATAAAAAAT-GTAAAG
9354470 AAAATTATAAAAAATGTAAAG
1 -AAA-TATAAAAAATGTAAAG
9354491 AAATATAAA
1 AAATATAAA
9354500 TTTCGTAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 13
0.68 0.15 0.18
Matches are distributed among these distances:
18 6 0.12
19 25 0.50
20 9 0.18
21 10 0.20
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (19 bp):
AAATATAAAAAATGTAAAG
Found at i:9356702 original size:48 final size:47
Alignment explanation
Indices: 9356647--9356795 Score: 181
Period size: 48 Copynumber: 3.1 Consensus size: 47
9356637 TTGGCTATCA
**
9356647 GCATCGATATGTGATCCCATACAAGACCATGTCTAGGACATGGCATTG
1 GCATCGATATGTGATCCCATGTAAGACCATGT-TAGGACATGGCATTG
* ** * *
9356695 GCATCGATCTACGATCCCATGTAAGACCTTGTATGGGACATGGCATTG
1 GCATCGATATGTGATCCCATGTAAGACCATGT-TAGGACATGGCATTG
* * *
9356743 GCATCGATATGTGATCCCATGTAAGACCATATTCAAGATATGGCATTG
1 GCATCGATATGTGATCCCATGTAAGACCATGTT-AGGACATGGCATTG
9356791 GCATC
1 GCATC
9356796 CTACCATGTG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 83 0.99
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
GCATCGATATGTGATCCCATGTAAGACCATGTTAGGACATGGCATTG
Found at i:9364245 original size:28 final size:27
Alignment explanation
Indices: 9364169--9364278 Score: 150
Period size: 27 Copynumber: 4.0 Consensus size: 27
9364159 GTTTCAAAAA
* *
9364169 TATATAAT-AAGTCCGCACACTCAGTGC
1 TATATAATCAACT-CGCACACTTAGTGC
9364196 TATATAATCAACTCGCACACTTAGTGC
1 TATATAATCAACTCGCACACTTAGTGC
9364223 TATATAATCAAACTCGCACACTTAGTGC
1 TATATAATC-AACTCGCACACTTAGTGC
* * *
9364251 TACATAGTCAATTCGCACACTTAGTGC
1 TATATAATCAACTCGCACACTTAGTGC
9364278 T
1 T
9364279 GCACAATTTA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
27 48 0.63
28 28 0.37
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (27 bp):
TATATAATCAACTCGCACACTTAGTGC
Found at i:9371248 original size:28 final size:27
Alignment explanation
Indices: 9371185--9371336 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
9371175 ATAATAAGTC
* * *
9371185 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
9371212 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
9371240 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
9371267 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
9371295 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
9371322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9371337 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 67 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:9371255 original size:55 final size:55
Alignment explanation
Indices: 9371185--9371336 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
9371175 ATAATAAGTC
* * * *
9371185 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
9371240 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
9371295 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
9371337 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:9374418 original size:77 final size:77
Alignment explanation
Indices: 9374291--9374443 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
9374281 TCGAGCAGTG
* *
9374291 GTAGCACCCGGTCTCCCACTCTGATTTGCATTTTGTCCCGACAACCTCGGGCAATCTTTAATGAA
1 GTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCCGAAAACCTCGGGCAATCTTTAATGAA
9374356 CTGGTCAACTGT
66 CTGGTCAACTGT
9374368 GTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCCGAAAACCTCGGGCAATCTTTAATGAA
1 GTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCCGAAAACCTCGGGCAATCTTTAATGAA
* *
9374433 GTGGTCCACTG
66 CTGGTCAACTG
9374444 ATCCGCATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (77 bp):
GTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCCGAAAACCTCGGGCAATCTTTAATGAA
CTGGTCAACTGT
Found at i:9375905 original size:54 final size:54
Alignment explanation
Indices: 9375828--9375934 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
9375818 TCATATCTTG
* *
9375828 AGTTTCACAACTTGAAATTCAGTTTTGTGATTTTTCCCTGAAACTACACTCATA
1 AGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTACACTCATA
*
9375882 AGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCAT
1 AGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTACACTCAT
9375935 GTCCCCACCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (54 bp):
AGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTACACTCATA
Found at i:9377237 original size:40 final size:40
Alignment explanation
Indices: 9377146--9378075 Score: 1565
Period size: 40 Copynumber: 23.3 Consensus size: 40
9377136 TCCTCGTTCA
* ** * *
9377146 AATGCCTTCGGGACATAGTCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* **
9377185 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377225 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377265 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377305 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377345 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377385 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377425 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377465 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377505 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377545 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377585 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377625 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377665 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377705 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377745 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377785 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377825 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377865 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377905 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377945 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9377985 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
9378025 AATGCCTTCGGGACTTAACCTGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
9378065 AAGGCCTTCGG
1 AATGCCTTCGG
9378076 ATCTTAGTCC
Statistics
Matches: 838, Mismatches: 52, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 32 0.04
40 806 0.96
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:9380055 original size:297 final size:297
Alignment explanation
Indices: 9379521--9380112 Score: 1121
Period size: 297 Copynumber: 2.0 Consensus size: 297
9379511 GCTTTTGCCC
*
9379521 ATAGTGCTTTAGGCAAATTTTTCTGAATCATCAAGCACCTGGCCATATCCATCAAACTCCTATTC
1 ATAGTGCTTTAGGCAAATTCTTCTGAATCATCAAGCACCTGGCCATATCCATCAAACTCCTATTC
9379586 TTCCTTTCACTTACACCATTTTGCTGAGGTGTATATGTGTTGGTAAGCTGATGTTTGATGCCTGC
66 TTCCTTTCACTTACACCATTTTGCTGAGGTGTATATGTGTTGGTAAGCTGATGTTTGATGCCTGC
9379651 CTTATCACAAAAGGCTTGAAACTGAGCTGAGGTGTATTCAATCCCATTATTGGACCTTATGGTCT
131 CTTATCACAAAAGGCTTGAAACTGAGCTGAGGTGTATTCAATCCCATTATTGGACCTTATGGTCT
*
9379716 TCAGCTTGCAACCTGTTTCAGTCTCAGCAGCAGTCTTGAACTTCCAAAACACTAAGGCCGCCTCT
196 TCAGCTTGCAACCTGTTTCAGTCTCAGCAGCAGTCTTGAACTTCCAAAACACTAAGGCCACCTCT
* * *
9379781 GATTTCTGTTTTAGGAAGTAAAGCCAGCAATATCTTG
261 GATTTCTGTTTCAAGAAGTAAAGCCAACAATATCTTG
*
9379818 ATAGTGCTTTAGGCAGATTCTTCTGAATCATCAAGCACCTGGCCATATCCATCAAACTCCTATTC
1 ATAGTGCTTTAGGCAAATTCTTCTGAATCATCAAGCACCTGGCCATATCCATCAAACTCCTATTC
9379883 TTCCTTTCACTTACACCATTTTGCTGAGGTGTATATGTGTTGGTAAGCTGATGTTTGATGCCTGC
66 TTCCTTTCACTTACACCATTTTGCTGAGGTGTATATGTGTTGGTAAGCTGATGTTTGATGCCTGC
9379948 CTTATCACAAAAGGCTTGAAACTGAGCTGAGGTGTATTCAATCCCATTATTGGACCTTATGGTCT
131 CTTATCACAAAAGGCTTGAAACTGAGCTGAGGTGTATTCAATCCCATTATTGGACCTTATGGTCT
*
9380013 TCAGCTTGCAACCTGTTTCAGTCTCAGCAGCAGTCTTGAACTTCCAAAACACTAAGGCCACTTCT
196 TCAGCTTGCAACCTGTTTCAGTCTCAGCAGCAGTCTTGAACTTCCAAAACACTAAGGCCACCTCT
9380078 GATTTCTGTTTCAAGAAGTAAAGCCAACAATATCT
261 GATTTCTGTTTCAAGAAGTAAAGCCAACAATATCT
9380113 CGAGAAATCA
Statistics
Matches: 288, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
297 288 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (297 bp):
ATAGTGCTTTAGGCAAATTCTTCTGAATCATCAAGCACCTGGCCATATCCATCAAACTCCTATTC
TTCCTTTCACTTACACCATTTTGCTGAGGTGTATATGTGTTGGTAAGCTGATGTTTGATGCCTGC
CTTATCACAAAAGGCTTGAAACTGAGCTGAGGTGTATTCAATCCCATTATTGGACCTTATGGTCT
TCAGCTTGCAACCTGTTTCAGTCTCAGCAGCAGTCTTGAACTTCCAAAACACTAAGGCCACCTCT
GATTTCTGTTTCAAGAAGTAAAGCCAACAATATCTTG
Found at i:9384887 original size:43 final size:43
Alignment explanation
Indices: 9384838--9384975 Score: 188
Period size: 43 Copynumber: 3.2 Consensus size: 43
9384828 CGGAAAAAAT
* * * *
9384838 GCCGCTAAAGACTACGACCTTTAGCGGCACTTTTTTCATAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
*
9384881 GCCGCTAAAGACCACGACCTTTAGCGGCGC-TCTTCCAACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCC-ACAAAC
* * *
9384924 GCCGCTAAAGACCACAACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
9384967 GCCGCTAAA
1 GCCGCTAAA
9384976 AATATAATCT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.05
43 76 0.90
44 4 0.05
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:9387733 original size:10 final size:10
Alignment explanation
Indices: 9387718--9387748 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9387708 CTAATAATGT
9387718 AAGTTAAGCA
1 AAGTTAAGCA
9387728 AAGTTAAGCA
1 AAGTTAAGCA
*
9387738 AAGTCAAGCA
1 AAGTTAAGCA
9387748 A
1 A
9387749 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:9390815 original size:24 final size:24
Alignment explanation
Indices: 9390775--9390821 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
9390765 AATTATTGCT
9390775 TATGCAAAAAATTATTTCATTTTAC
1 TATGCAAAAAA-TATTTCATTTTAC
*
9390800 TATGCTAAAAAA-ATTTTATTTT
1 TATGC-AAAAAATATTTCATTTT
9390822 GTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 5 0.25
26 6 0.30
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
TATGCAAAAAATATTTCATTTTAC
Found at i:9390926 original size:74 final size:77
Alignment explanation
Indices: 9390840--9390995 Score: 228
Period size: 75 Copynumber: 2.1 Consensus size: 77
9390830 ATAAATTGAT
* *
9390840 TTTTTTGCGGCG-TTTTTATGAAAACGCCGCTAAATGTTTTGCTATATAAAAT-CGCTA-TTTTT
1 TTTTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGCGCTATTTTTT
9390902 AAAGTAAAATCA
66 AAAGTAAAATCA
* * *
9390914 TTTTTTGTGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATGAAATGCGTTATTTTTT
1 TTTTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGCGCTA-TTTTT
*
9390979 TAAAGTAAAATTA
65 TAAAGTAAAATCA
9390992 TTTT
1 TTTT
9390996 ACTATCAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 11 0.15
75 37 0.51
76 4 0.06
78 20 0.28
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (77 bp):
TTTTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGCGCTATTTTTT
AAAGTAAAATCA
Found at i:9391811 original size:21 final size:21
Alignment explanation
Indices: 9391785--9391899 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
9391775 CTAATTAATA
**
9391785 TAACCCTTAATCCCTAACCTT
1 TAACCCTTAATCCCTAACCCC
* *
9391806 TAACCCCTAA-CCTTTAACCCC
1 TAACCCTTAATCC-CTAACCCC
* *
9391827 TAACTCTTAATCTCTAACCCC
1 TAACCCTTAATCCCTAACCCC
* ** *
9391848 TAACTCTTAATCTGTAACCCT
1 TAACCCTTAATCCCTAACCCC
* * *
9391869 TAACCCCTAACCCCTAACCCA
1 TAACCCTTAATCCCTAACCCC
*
9391890 TAAACCTTAA
1 TAACCCTTAA
9391900 ATCATAACCC
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.03
21 71 0.96
22 1 0.01
ACGTcount: A:0.31, C:0.39, G:0.01, T:0.29
Consensus pattern (21 bp):
TAACCCTTAATCCCTAACCCC
Found at i:9391816 original size:7 final size:7
Alignment explanation
Indices: 9391785--9391888 Score: 64
Period size: 7 Copynumber: 14.9 Consensus size: 7
9391775 CTAATTAATA
*
9391785 TAACCCT
1 TAACCCC
*
9391792 TAATCCC
1 TAACCCC
**
9391799 TAACCTT
1 TAACCCC
9391806 TAACCCC
1 TAACCCC
**
9391813 TAACCTT
1 TAACCCC
9391820 TAACCCC
1 TAACCCC
* *
9391827 TAACTCT
1 TAACCCC
* *
9391834 TAATCTC
1 TAACCCC
9391841 TAACCCC
1 TAACCCC
* *
9391848 TAACTCT
1 TAACCCC
* **
9391855 TAATCTG
1 TAACCCC
*
9391862 TAACCCT
1 TAACCCC
9391869 TAACCCC
1 TAACCCC
9391876 TAACCCC
1 TAACCCC
9391883 TAACCC
1 TAACCC
9391889 ATAAACCTTA
Statistics
Matches: 68, Mismatches: 29, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
7 68 1.00
ACGTcount: A:0.29, C:0.41, G:0.01, T:0.29
Consensus pattern (7 bp):
TAACCCC
Found at i:9391836 original size:14 final size:14
Alignment explanation
Indices: 9391785--9391888 Score: 84
Period size: 14 Copynumber: 7.4 Consensus size: 14
9391775 CTAATTAATA
*
9391785 TAACCCTTAATCCC
1 TAACCCTTAACCCC
*
9391799 TAACCTTTAACCCC
1 TAACCCTTAACCCC
*
9391813 TAACCTTTAACCCC
1 TAACCCTTAACCCC
* * *
9391827 TAACTCTTAATCTC
1 TAACCCTTAACCCC
* * *
9391841 TAACCCCTAACTCT
1 TAACCCTTAACCCC
* *
9391855 TAA-TCTGTAACCCT
1 TAACCCT-TAACCCC
*
9391869 TAACCCCTAACCCC
1 TAACCCTTAACCCC
9391883 TAACCC
1 TAACCC
9391889 ATAAACCTTA
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
13 1 0.01
14 68 0.97
15 1 0.01
ACGTcount: A:0.29, C:0.41, G:0.01, T:0.29
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:9391905 original size:14 final size:14
Alignment explanation
Indices: 9391888--9391917 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9391878 ACCCCTAACC
9391888 CATAAACCTTAAAT
1 CATAAACCTTAAAT
*
9391902 CATAACCCTTAAAT
1 CATAAACCTTAAAT
9391916 CA
1 CA
9391918 GAATCCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAT
Found at i:9393805 original size:14 final size:13
Alignment explanation
Indices: 9393786--9393833 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
9393776 GTTACTACTA
*
9393786 TTATATCATTAGTT
1 TTATATTATTA-TT
9393800 TTATATTATTATT
1 TTATATTATTATT
*
9393813 GTTATATTTTTATT
1 -TTATATTATTATT
9393827 TTATATT
1 TTATATT
9393834 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:9393915 original size:20 final size:20
Alignment explanation
Indices: 9393890--9393936 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9393880 TAACTATTTA
*
9393890 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
9393910 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
9393930 TATATAT
1 TATATAT
9393937 ATGTGTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:9397995 original size:125 final size:125
Alignment explanation
Indices: 9397778--9398054 Score: 439
Period size: 125 Copynumber: 2.2 Consensus size: 125
9397768 CCATTTTTAT
9397778 GCGCTTTTGCTACAGTAGGTCCT-AAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
* * * * *
9397842 AAAATCGCTTCTAGCAAGATGATGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGGAC
66 AAAATCGCTTCAAACAAGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAC
*
9397902 GCGCTTTTGCTACGGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
1 GCGCTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
* * * * *
9397967 AAAATCGCTTCAAACAGGATGCTATTTGAGAAGAATTTGTGAAATTGTGCCCTCGTGGAT
66 AAAATCGCTTCAAACAAGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAC
*
9398027 GCGCTTTTGCTACAGTAAGTCCTGAAAA
1 GCGCTTTTGCTACAGTAGGTCCTGAAAA
9398055 TTGAGAGGAA
Statistics
Matches: 139, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
124 22 0.16
125 117 0.84
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
GCGCTTTTGCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT
AAAATCGCTTCAAACAAGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGAC
Found at i:9408131 original size:21 final size:21
Alignment explanation
Indices: 9408097--9408137 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9408087 AGAAGAAGAA
*
9408097 CCCAAGAAGTCTAATATCAAG
1 CCCAAGAAGTCTAAGATCAAG
9408118 CCCAAGAAAG-CTAAGATCAA
1 CCCAAG-AAGTCTAAGATCAA
9408138 CTAGTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (21 bp):
CCCAAGAAGTCTAAGATCAAG
Found at i:9418009 original size:10 final size:11
Alignment explanation
Indices: 9417978--9418010 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
9417968 CGACCCACCC
9417978 ATATTAATGTTT
1 ATATTAAT-TTT
9417990 ATATTAATTTT
1 ATATTAATTTT
9418001 ATA-TAATTTT
1 ATATTAATTTT
9418011 TAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:9419849 original size:49 final size:48
Alignment explanation
Indices: 9419777--9419939 Score: 202
Period size: 49 Copynumber: 3.4 Consensus size: 48
9419767 TGTTAAGCCA
* * *
9419777 TGTG-GGGGCACACGGTGTGTGTGATTACACGGGTAAATCAGGTAGGT
1 TGTGTGGGGCACAAGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
* *
9419824 TGTGTGGGGCACATGGGCGTGTGTGATTACATGGGTAAATCAGGTAGGC
1 TGTGTGGGGCACA-AGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
* * * *
9419873 CGTGTGAGGCACACAGGCGTATGCGATTACATGGGTAAATCAGGTAGGT
1 TGTGTGGGGCACA-AGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
*
9419922 TGTGTAGGGCACACAGGC
1 TGTGTGGGGCACA-AGGC
9419940 AAATTAGGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 4 0.04
48 8 0.08
49 88 0.88
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (48 bp):
TGTGTGGGGCACAAGGCGTGTGTGATTACATGGGTAAATCAGGTAGGT
Found at i:9421061 original size:5 final size:6
Alignment explanation
Indices: 9421011--9421060 Score: 55
Period size: 6 Copynumber: 7.5 Consensus size: 6
9421001 CAAAAATAAC
9421011 AAAATAA AAAATA AAAATA AAATTTATA CAAAATA AAAATA AAAATA AAA
1 AAAAT-A AAAATA AAAATA AAA---ATA -AAAATA AAAATA AAAATA AAA
9421061 TTATAAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 25 0.64
7 8 0.21
9 3 0.08
10 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:9421074 original size:29 final size:28
Alignment explanation
Indices: 9421008--9421074 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
9420998 TAACAAAAAT
9421008 AACAAAATAAAAAATAAAAATAAAATTTA
1 AACAAAAT-AAAAATAAAAATAAAATTTA
*
9421037 TACAAAATAAAAATAAAAATAAAATTATA
1 AACAAAATAAAAATAAAAATAAAATT-TA
*
9421066 AACATAATA
1 AACAAAATA
9421075 TACTAGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (28 bp):
AACAAAATAAAAATAAAAATAAAATTTA
Found at i:9421380 original size:3 final size:3
Alignment explanation
Indices: 9421372--9421431 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
9421362 TGCGGTAAGT
* *
9421372 ATA ATA ATA AAA ATA TATA AT- ATA ATA ATA ATA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
9421416 ATTCA GTA ATA ATA AT
1 A-T-A ATA ATA ATA AT
9421432 GTAATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9421405 original size:14 final size:14
Alignment explanation
Indices: 9421372--9421417 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9421362 TGCGGTAAGT
9421372 ATAATAATA-AA-A
1 ATAATAATATAATA
9421384 ATATATAATATAATA
1 ATA-ATAATATAATA
9421399 ATAATAA-ACTAATA
1 ATAATAATA-TAATA
9421413 ATAAT
1 ATAAT
9421418 TCAGTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:9421416 original size:11 final size:10
Alignment explanation
Indices: 9421374--9421416 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
9421364 CGGTAAGTAT
9421374 AATAATAA-A
1 AATAATAATA
9421383 AATATATAATA
1 AATA-ATAATA
9421394 TAATAATAATA
1 -AATAATAATA
9421405 AACTAATAATA
1 AA-TAATAATA
9421416 A
1 A
9421417 TTCAGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.13
10 6 0.20
11 16 0.53
12 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAATAATA
Found at i:9422240 original size:201 final size:201
Alignment explanation
Indices: 9421895--9422296 Score: 795
Period size: 201 Copynumber: 2.0 Consensus size: 201
9421885 ACTCCCTTCC
9421895 TCGTTTTGTTTATTTGTTGTTTTTTAGAAGCAAAAGAAAAGAACTAAAATAAATTAAAAAAAACA
1 TCGTTTTGTTTATTTGTTGTTTTTTAGAAGCAAAAGAAAAGAACTAAAATAAATTAAAAAAAACA
9421960 GTAAAGGAACAGAAAAATAAAACCAAATCCCACCTTCAAAAATATTTTTCTGTATATTTTCTTTT
66 GTAAAGGAACAGAAAAATAAAACCAAATCCCACCTTCAAAAATATTTTTCTGTATATTTTCTTTT
9422025 TGATTTCGGTACAAAAAAAAATTTGCTAACCCCGTTACAAAGATCGATTGGCCTTTATATAGCCG
131 TGATTTCGGTACAAAAAAAAATTTGCTAACCCCGTTACAAAGATCGATTGGCCTTTATATAGCCG
9422090 AATCAA
196 AATCAA
9422096 TCGTTTTGTTTATTTGTTGTTTTTTAGAAGCAAAAGAAAAGAACTAAAATAAATTAAAAAAAACA
1 TCGTTTTGTTTATTTGTTGTTTTTTAGAAGCAAAAGAAAAGAACTAAAATAAATTAAAAAAAACA
9422161 GTAAAGGAACAGAAAAATAAAACCAAATCCCACCTTCAAAAATATTTTTCTGTATATTTTCTTTT
66 GTAAAGGAACAGAAAAATAAAACCAAATCCCACCTTCAAAAATATTTTTCTGTATATTTTCTTTT
*
9422226 TGATTTCGGTACAAAAAAAAGTTTGCTAACCCCGTTACAAAGATCGATTGGCCTTTATATAGCCG
131 TGATTTCGGTACAAAAAAAAATTTGCTAACCCCGTTACAAAGATCGATTGGCCTTTATATAGCCG
9422291 AATCAA
196 AATCAA
9422297 AAAAAAACAA
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 200 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (201 bp):
TCGTTTTGTTTATTTGTTGTTTTTTAGAAGCAAAAGAAAAGAACTAAAATAAATTAAAAAAAACA
GTAAAGGAACAGAAAAATAAAACCAAATCCCACCTTCAAAAATATTTTTCTGTATATTTTCTTTT
TGATTTCGGTACAAAAAAAAATTTGCTAACCCCGTTACAAAGATCGATTGGCCTTTATATAGCCG
AATCAA
Found at i:9428345 original size:25 final size:25
Alignment explanation
Indices: 9428272--9428362 Score: 62
Period size: 25 Copynumber: 3.6 Consensus size: 25
9428262 TCACCACAGC
* *
9428272 TCGTATGAGCTTACCGGT-TTGCAGC
1 TCGTATGAGCTTACC-GTATTTCAGT
* * **
9428297 TCGTAAGAACTTATAG-ATTCTCAGT
1 TCGTATGAGCTTACCGTATT-TCAGT
9428322 TCGTATGAGCTTACCGTATTTCAGCT
1 TCGTATGAGCTTACCGTATTTCAG-T
* *
9428348 T-GGAGGAGCTTACCG
1 TCGTATGAGCTTACCG
9428363 ATTATGGCTC
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
24 3 0.06
25 42 0.84
26 5 0.10
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (25 bp):
TCGTATGAGCTTACCGTATTTCAGT
Found at i:9440518 original size:26 final size:26
Alignment explanation
Indices: 9440485--9440551 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
9440475 ATAAAAAATA
*
9440485 ATCAAAATATTATAATTTTTTTATTT
1 ATCAAAATATTATAAATTTTTTATTT
9440511 ATCAAAATATTATAAATTTTTTATTT
1 ATCAAAATATTATAAATTTTTTATTT
9440537 ATCAAAATA-TATAAA
1 ATCAAAATATTATAAA
9440552 AACAAAACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 6 0.15
26 34 0.85
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
ATCAAAATATTATAAATTTTTTATTT
Found at i:9441222 original size:15 final size:15
Alignment explanation
Indices: 9441202--9441251 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
9441192 ATTACCAAAA
9441202 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
9441217 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
*
9441232 GAGAATAGTTTATTAAAT
1 TAG---AGTTTATTAAAT
9441250 TA
1 TA
9441252 AAACAGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 17 0.57
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (15 bp):
TAGAGTTTATTAAAT
Found at i:9444505 original size:25 final size:25
Alignment explanation
Indices: 9444477--9444532 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
9444467 GAACGCGAAA
9444477 GCGGATCGTAAAGTTTGTCAAAGTC
1 GCGGATCGTAAAGTTTGTCAAAGTC
9444502 GCGGATCGTAAAGTTTGTCAAAGTC
1 GCGGATCGTAAAGTTTGTCAAAGTC
9444527 GCGGAT
1 GCGGAT
9444533 TTAACTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (25 bp):
GCGGATCGTAAAGTTTGTCAAAGTC
Found at i:9444892 original size:30 final size:25
Alignment explanation
Indices: 9444835--9444885 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9444825 AAACTCTTCT
9444835 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTCTTA
*
9444860 AAAAGAAACTCAAGAGAAATTATTA
1 AAAAGAAACTCAAGAGAAATTCTTA
9444885 A
1 A
9444886 CTTAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTCTTA
Found at i:9448799 original size:14 final size:15
Alignment explanation
Indices: 9448768--9448803 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
9448758 TTTTTTTAAA
*
9448768 TTAAATTCTATTCTT
1 TTAAATTCTATTCAT
9448783 TTAAATT-TATTCAT
1 TTAAATTCTATTCAT
9448797 TTAAATT
1 TTAAATT
9448804 ATTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATTCTATTCAT
Found at i:9449038 original size:17 final size:18
Alignment explanation
Indices: 9449016--9449051 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
9449006 CTTTTTTATC
9449016 TTTAC-ATACAAAATTGA
1 TTTACAATACAAAATTGA
9449033 TTTACAGATACAAAATTGA
1 TTTACA-ATACAAAATTGA
9449052 ATCACAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (18 bp):
TTTACAATACAAAATTGA
Found at i:9449058 original size:19 final size:19
Alignment explanation
Indices: 9449021--9449059 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9449011 TTATCTTTAC
* *
9449021 ATACAAAATTGATTTACAG
1 ATACAAAATTGAATCACAG
9449040 ATACAAAATTGAATCACAG
1 ATACAAAATTGAATCACAG
9449059 A
1 A
9449060 GATAAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (19 bp):
ATACAAAATTGAATCACAG
Found at i:9453023 original size:126 final size:126
Alignment explanation
Indices: 9452798--9453287 Score: 881
Period size: 126 Copynumber: 3.9 Consensus size: 126
9452788 CCAAACATGT
* * *
9452798 GCCACTGTAACAAAAGTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
1 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
9452863 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
9452924 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
1 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
9452989 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
9453050 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
1 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
* * *
9453115 GCTGAAAGCGGTTTTGACAGTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
*
9453176 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
* * * *
9453241 GCTTAAAACGTTTCTGACACTATTTGCTCAGAAACGTCTAATCGAAA
66 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAA
9453288 GTCTACTCGA
Statistics
Matches: 350, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 350 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (126 bp):
GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
Found at i:9453658 original size:96 final size:95
Alignment explanation
Indices: 9453436--9453660 Score: 229
Period size: 96 Copynumber: 2.3 Consensus size: 95
9453426 AAACACTTAC
* * * * *
9453436 CCCTAATCAAATTTTATAAAAATTTATAATTAATTTACTCAAGTAATCCTGAACCCTAATTTATT
1 CCCTAATCAAATTTT-TAAAAAATTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAAT
* ** * * *
9453501 TAATTTTTCCTTAAAAACCCTTAACTCTAAA
65 TAATTTTTCATTAAAAACAATAAACGCGAAA
* **
9453532 CCCTTATCTGATTTTTAAATAATATT-TAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAA
1 CCCTAATCAAATTTTTAAA-AA-ATTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAA
* * *
9453596 TTATTTTTTTTATTAAAAAATAATAAACGCGAAA
64 TTA-ATTTTTCATT-AAAAACAATAAACGCGAAA
*
9453630 -CCTAATCCAATTTTTAAAAAATTATAATTAA
1 CCCTAATCAAATTTTTAAAAAATTATAATTAA
9453661 TTCAATTGAC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
95 7 0.07
96 60 0.58
97 24 0.23
98 13 0.12
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.40
Consensus pattern (95 bp):
CCCTAATCAAATTTTTAAAAAATTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATT
AATTTTTCATTAAAAACAATAAACGCGAAA
Found at i:9454128 original size:16 final size:17
Alignment explanation
Indices: 9454078--9454128 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
9454068 TATTATAAAG
*
9454078 TAAATATTAAAATA-TAGT
1 TAAATA-TAAAATATTA-A
*
9454096 TAAATATAAAATTTTAA
1 TAAATATAAAATATTAA
9454113 TAAATA-AAAATATTAA
1 TAAATATAAAATATTAA
9454129 ATATTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.31
17 12 0.41
18 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAATATAAAATATTAA
Found at i:9462379 original size:10 final size:10
Alignment explanation
Indices: 9462364--9462442 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
9462354 TTATCAGACC
9462364 AAAAATTTAT
1 AAAAATTTAT
9462374 AAAAATTTATT
1 AAAAATTTA-T
9462385 AAAAATTTATTT
1 AAAAATTTA--T
* *
9462397 TAAAATATAT
1 AAAAATTTAT
*
9462407 AAAAATGTA-
1 AAAAATTTAT
9462416 AAAAATATT-T
1 AAAAAT-TTAT
*
9462426 AAATTATTTA-
1 AAA-AATTTAT
9462436 AAAAATT
1 AAAAATT
9462443 AAATATTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
9 9 0.16
10 26 0.46
11 12 0.21
12 9 0.16
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:9462402 original size:12 final size:11
Alignment explanation
Indices: 9462364--9462395 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
9462354 TTATCAGACC
9462364 AAAAATTTA-T
1 AAAAATTTATT
9462374 AAAAATTTATT
1 AAAAATTTATT
9462385 AAAAATTTATT
1 AAAAATTTATT
9462396 TTAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAAATTTATT
Found at i:9462465 original size:20 final size:20
Alignment explanation
Indices: 9462440--9462497 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
9462430 TATTTAAAAA
9462440 ATTAAATATTATAAATATTT
1 ATTAAATATTATAAATATTT
*
9462460 ATTAAATATTTTAAA-A-TT
1 ATTAAATATTATAAATATTT
* *
9462478 ATTAAAAATCATAAAATATT
1 ATTAAATATTAT-AAATATT
9462498 ATTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 11 0.35
19 4 0.13
20 15 0.48
21 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATATTATAAATATTT
Found at i:9462498 original size:20 final size:19
Alignment explanation
Indices: 9462472--9462524 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
9462462 TAAATATTTT
9462472 AAAATTATTAAAAATCATA
1 AAAATTATTAAAAATCATA
* **
9462491 AAATATTATTTAAAATTTGTA
1 AAA-ATTA-TTAAAAATCATA
9462512 AAAATTATTAAAA
1 AAAATTATTAAAA
9462525 TTGTGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 9 0.31
20 8 0.28
21 12 0.41
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAAATCATA
Found at i:9462524 original size:9 final size:9
Alignment explanation
Indices: 9462416--9462526 Score: 59
Period size: 10 Copynumber: 11.7 Consensus size: 9
9462406 TAAAAATGTA
*
9462416 AAAAATATT
1 AAAATTATT
*
9462425 TAAATTATTT
1 AAAATTA-TT
*
9462435 AAAA-AATT
1 AAAATTATT
9462443 AAATATTA-T
1 AAA-ATTATT
9462452 AAATATTTATT
1 AAA-A-TTATT
9462463 AAATATT-TT
1 AAA-ATTATT
9462472 AAAATTATT
1 AAAATTATT
* *
9462481 AAAAATCATA
1 -AAAATTATT
9462491 AAATATTATTT
1 AAA-ATTA-TT
9462502 AAAATT-TGT
1 AAAATTAT-T
9462511 AAAAATTATT
1 -AAAATTATT
9462521 AAAATT
1 AAAATT
9462527 GTGAAATCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
8 9 0.11
9 30 0.37
10 31 0.38
11 11 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
AAAATTATT
Found at i:9462770 original size:3 final size:3
Alignment explanation
Indices: 9462762--9462791 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9462752 AGAGAAAGTT
*
9462762 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
9462792 AATAATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9462827 original size:20 final size:20
Alignment explanation
Indices: 9462802--9462850 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9462792 AATAATTTGT
9462802 TAATTATTTAT-ATTTTTTAA
1 TAATTATTTATGA-TTTTTAA
9462822 TAATTATTTATGATTTTTAA
1 TAATTATTTATGATTTTTAA
9462842 TAATT-TTTA
1 TAATTATTTA
9462851 AAAATTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TAATTATTTATGATTTTTAA
Found at i:9462849 original size:10 final size:10
Alignment explanation
Indices: 9462802--9462876 Score: 61
Period size: 10 Copynumber: 7.8 Consensus size: 10
9462792 AATAATTTGT
9462802 TAATTATTT-A
1 TAATT-TTTAA
*
9462812 TATTTTTTAA
1 TAATTTTTAA
9462822 TAATTATTT-A
1 TAATT-TTTAA
*
9462832 TGATTTTTAA
1 TAATTTTTAA
9462842 TAATTTTTAA
1 TAATTTTTAA
*
9462852 -AA-ATTT-A
1 TAATTTTTAA
*
9462859 TAACTTTTAA
1 TAATTTTTAA
9462869 TAATTTTT
1 TAATTTTT
9462877 TTACAATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 1 0.02
8 5 0.10
9 11 0.21
10 32 0.62
11 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:9462857 original size:20 final size:20
Alignment explanation
Indices: 9462815--9462899 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
9462805 TTATTTATAT
**
9462815 TTTTTAATAATTATTT-ATGA
1 TTTTTAATAATT-TTTAAAAA
9462835 TTTTTAATAATTTTTAAAAA
1 TTTTTAATAATTTTTAAAAA
* *
9462855 --TTT-ATAACTTTTAATAA
1 TTTTTAATAATTTTTAAAAA
* *
9462872 TTTTT-TTACAATTTTAAAATA
1 TTTTTAATA-ATTTTTAAAA-A
9462893 TTTTTAA
1 TTTTTAA
9462900 CAATATTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 12 0.24
18 3 0.06
19 8 0.16
20 22 0.43
21 6 0.12
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTTTAATAATTTTTAAAAA
Found at i:9462861 original size:17 final size:17
Alignment explanation
Indices: 9462841--9462874 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9462831 ATGATTTTTA
*
9462841 ATAATTTTTAAAAATTT
1 ATAACTTTTAAAAATTT
*
9462858 ATAACTTTTAATAATTT
1 ATAACTTTTAAAAATTT
9462875 TTTTACAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAACTTTTAAAAATTT
Found at i:9462879 original size:21 final size:19
Alignment explanation
Indices: 9462846--9462903 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
9462836 TTTTAATAAT
* *
9462846 TTTTAAAA-ATTTATA-AC
1 TTTTAAAATATTTTTACAA
*
9462863 TTTTAATAATTTTTTTACAA
1 TTTTAA-AATATTTTTACAA
9462883 TTTTAAAATATTTTTAACAA
1 TTTTAAAATATTTTT-ACAA
9462903 T
1 T
9462904 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 13 0.39
20 12 0.36
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAAAATATTTTTACAA
Found at i:9462902 original size:20 final size:20
Alignment explanation
Indices: 9462834--9462903 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
9462824 ATTATTTATG
*
9462834 ATTTTTAATAATTTTTAAAA-
1 ATTTTTAACAA-TTTTAAAAT
*
9462854 ATTTATAAC--TTTTAATAAT
1 ATTTTTAACAATTTTAA-AAT
*
9462873 -TTTTTTACAATTTTAAAAT
1 ATTTTTAACAATTTTAAAAT
9462892 ATTTTTAACAAT
1 ATTTTTAACAAT
9462904 ATTTGATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 3 0.08
20 23 0.57
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTTAACAATTTTAAAAT
Found at i:9462932 original size:35 final size:34
Alignment explanation
Indices: 9462891--9462960 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
9462881 AATTTTAAAA
*
9462891 TATTTTTAACAATATTTGATA-ATTATTTACATATT
1 TATTTTTAACAAT-TTTGATATATT-TTTAAATATT
* *
9462926 TATTTTTTACAATTTTTATATATTTTTAAATATT
1 TATTTTTAACAATTTTGATATATTTTTAAATATT
9462960 T
1 T
9462961 TACGATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (34 bp):
TATTTTTAACAATTTTGATATATTTTTAAATATT
Found at i:9462951 original size:20 final size:20
Alignment explanation
Indices: 9462873--9462952 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
9462863 TTTTAATAAT
* *
9462873 TTTTTTACAATTTTAAAATA
1 TTTTTTACAATTTTTATATA
* *
9462893 TTTTTAACAATATTTGATA-A
1 TTTTTTACAAT-TTTTATATA
* *
9462913 TTATTTAC-A----TATTTA
1 TTTTTTACAATTTTTATATA
9462928 TTTTTTACAATTTTTATATA
1 TTTTTTACAATTTTTATATA
9462948 TTTTT
1 TTTTT
9462953 AAATATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 2 0.05
15 8 0.18
16 1 0.02
19 1 0.02
20 27 0.61
21 5 0.11
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTTTACAATTTTTATATA
Found at i:9464992 original size:25 final size:24
Alignment explanation
Indices: 9464964--9465017 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
9464954 TTTCAAATAG
*
9464964 CAGGCCTTGAGTCGGTGTTATCTAT
1 CAGGCCTTGAGCCGGTG-TATCTAT
* * *
9464989 CAGGCTTTGTGCCGGTGTATTTAT
1 CAGGCCTTGAGCCGGTGTATCTAT
9465013 CAGGC
1 CAGGC
9465018 TTTGTGTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (24 bp):
CAGGCCTTGAGCCGGTGTATCTAT
Found at i:9465018 original size:24 final size:25
Alignment explanation
Indices: 9464976--9465023 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
9464966 GGCCTTGAGT
9464976 CGGTGTTATCTATCAGGCTTTGTGC
1 CGGTGTTATCTATCAGGCTTTGTGC
*
9465001 CGGTG-TATTTATCAGGCTTTGTG
1 CGGTGTTATCTATCAGGCTTTGTG
9465024 TCAATGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.42
Consensus pattern (25 bp):
CGGTGTTATCTATCAGGCTTTGTGC
Done.