Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 186 of 344
Found at i:62118000 original size:80 final size:81
Alignment explanation
Indices: 62117905--62118089 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 81
62117895 CTTGCACAAG
* * *
62117905 GCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGAATAAATGCCTTCGGGA-CTTAGCCCGGA-T
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGAACAAATGCCTTC-GGATCTTAGCCC-GATT
* *
62117967 ATAATC-GCTAGCACAAAT
63 ATAATCACCTAGCACAAAA
* * * *
62117985 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGATTATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGAACAAATGCCTTCGGATCTTAGCCCGATTATA
*
62118050 GTCACCTAGCACAAAA
66 ATCACCTAGCACAAAA
*
62118066 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
62118090 CATTCGAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
79 6 0.07
80 51 0.57
81 33 0.37
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGAACAAATGCCTTCGGATCTTAGCCCGATTATA
ATCACCTAGCACAAAA
Found at i:62134862 original size:23 final size:22
Alignment explanation
Indices: 62134809--62134862 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
62134799 TTTTTACTCA
62134809 AAAGATAAAAATATGAGAAAAG
1 AAAGATAAAAATATGAGAAAAG
* *
62134831 TAAGTATAAAAATTAT-TGAAAAG
1 AAAG-ATAAAAA-TATGAGAAAAG
62134854 AATAGATAA
1 AA-AGATAA
62134863 TTTTTGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (22 bp):
AAAGATAAAAATATGAGAAAAG
Found at i:62135077 original size:17 final size:18
Alignment explanation
Indices: 62135052--62135097 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
62135042 AATACCAAAT
*
62135052 AATAAATATA-ATTTTTA
1 AATAAATATAGATTTGTA
*
62135069 AATATATATAGATTTGTA
1 AATAAATATAGATTTGTA
*
62135087 AA-AAAAATAGA
1 AATAAATATAGA
62135098 AAATTGTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
AATAAATATAGATTTGTA
Found at i:62135376 original size:24 final size:25
Alignment explanation
Indices: 62135349--62135399 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
62135339 TGTTGATTTT
*
62135349 TTTTTA-TAAAAATTCTCATCGATA
1 TTTTTACTAAAAATTCACATCGATA
*
62135373 -TTTTACTATAAATTCACATCGATA
1 TTTTTACTAAAAATTCACATCGATA
62135397 TTT
1 TTT
62135400 GGGTTCTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 16 0.70
25 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (25 bp):
TTTTTACTAAAAATTCACATCGATA
Found at i:62147358 original size:97 final size:99
Alignment explanation
Indices: 62147239--62147416 Score: 240
Period size: 97 Copynumber: 1.8 Consensus size: 99
62147229 AATTTTAGGG
* ** *
62147239 TTTTAAGGAAAAAAATTAAATAAATTAAGG-TTTAGTG-TTTGTTAATTAAATTAATTACT-AA-
1 TTTTAAGGAAAAAAATCAAATAAATT-AGGATTTAG-GATTACTTAAGTAAATTAATTA-TAAAT
62147300 TTTTAAAAAAAATAGATTATGGTTTAGTGTTTATGGT
63 TTTTAAAAAAAATAGATTATGGTTTAGTGTTTATGGT
*
62147337 TTTTAAGG-AAAAAATCAAATAAATTAGGATTTAGGATTACTTGAGTAAATTAATTATAAATTTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGATTTAGGATTACTTAAGTAAATTAATTATAAATTTT
*
62147401 TAAAAAAATTAGATTA
66 TAAAAAAAATAGATTA
62147417 GGATTTTAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
96 5 0.07
97 39 0.56
98 26 0.37
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (99 bp):
TTTTAAGGAAAAAAATCAAATAAATTAGGATTTAGGATTACTTAAGTAAATTAATTATAAATTTT
TAAAAAAAATAGATTATGGTTTAGTGTTTATGGT
Found at i:62148669 original size:30 final size:30
Alignment explanation
Indices: 62148626--62148688 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
62148616 TGGGAAGTGG
*
62148626 AATGGGAAGGGAGTAAAAGTTTTAGGGAGAA
1 AATGGGAAGGGAGTAAAAATTTT-GGGAGAA
*
62148657 AATGGG-AGGGAGTAAAAATTTTGGGGGAA
1 AATGGGAAGGGAGTAAAAATTTTGGGAGAA
62148686 AAT
1 AAT
62148689 AAAAAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.30
30 15 0.50
31 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (30 bp):
AATGGGAAGGGAGTAAAAATTTTGGGAGAA
Found at i:62148918 original size:9 final size:9
Alignment explanation
Indices: 62148900--62148945 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
62148890 TATAGTTTGA
62148900 TATTCGAAT
1 TATTCGAAT
*
62148909 TATTCAAAT
1 TATTCGAAT
*
62148918 TATTCGAGT
1 TATTCGAAT
*
62148927 TATTCGAGT
1 TATTCGAAT
*
62148936 TATTCAAAT
1 TATTCGAAT
62148945 T
1 T
62148946 CGAAAACTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:62149021 original size:18 final size:18
Alignment explanation
Indices: 62148995--62149029 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
62148985 ATTCGAGTTG
62148995 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
62149013 ACTCGAATAACTCGATT
1 ACTCAAATAACTCGATT
62149030 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:62159629 original size:46 final size:48
Alignment explanation
Indices: 62159542--62159667 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 48
62159532 GGGGTAAAGT
* *
62159542 GCCGATGCCATGTCCCAGACATGGTCATACACTGACA--CATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCATCTCATA
62159588 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACTCATCTCA-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCATCTCATA
* *
62159633 TGCCGATGCCATGTCCCAAACATGGTTTTACACTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTA
62159668 GCTCTTATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
44 12 0.17
45 15 0.21
46 21 0.30
47 13 0.18
48 10 0.14
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCATCTCATA
Found at i:62161815 original size:21 final size:22
Alignment explanation
Indices: 62161789--62161830 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
62161779 ATGGTTGTTT
* *
62161789 ATATTAATATTAA-TTATTAAA
1 ATATTAAAAATAATTTATTAAA
62161810 ATATTAAAAATAATTTATTAA
1 ATATTAAAAATAATTTATTAA
62161831 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATTAAAAATAATTTATTAAA
Found at i:62163739 original size:28 final size:28
Alignment explanation
Indices: 62163707--62163769 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
62163697 TCCCATATTA
*
62163707 ATGGGGTATAGGAAAAGTTTCATAATTT
1 ATGGGGTATAGGAAAAGTTTCATAACTT
* * *
62163735 ATGGGGTATATGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTTTCATAACTT
62163763 ATGGGGT
1 ATGGGGT
62163770 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.37
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTTTCATAACTT
Found at i:62169148 original size:28 final size:28
Alignment explanation
Indices: 62169117--62169179 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
62169107 TCCCATATTA
*
62169117 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* *
62169145 ATGGGGTATAGGAAAAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
62169173 ATGGGGT
1 ATGGGGT
62169180 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:62170327 original size:16 final size:16
Alignment explanation
Indices: 62170304--62170359 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
62170294 CGTTTGGTTG
*
62170304 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
* *
62170320 GTTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
62170336 GCTATAATGGAATAGA
1 GCTGTAATGGAATAGA
62170352 GCTGTAAT
1 GCTGTAAT
62170360 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:62170434 original size:44 final size:46
Alignment explanation
Indices: 62170341--62170434 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
62170331 ATAGAGCTAT
*
62170341 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
***
62170387 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
62170431 AATG
1 AATG
62170435 ATGTTATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:62177719 original size:18 final size:17
Alignment explanation
Indices: 62177691--62177725 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62177681 ATTATTAAGA
*
62177691 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62177708 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62177726 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62177974 original size:45 final size:44
Alignment explanation
Indices: 62177885--62177979 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
62177875 TTACACCTCT
*
62177885 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
62177929 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
62177974 ATTACA
1 ATTACA
62177980 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:62177979 original size:16 final size:16
Alignment explanation
Indices: 62177958--62177995 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
62177948 TTGATTTGCT
*
62177958 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
62177974 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
62177990 AATACA
1 ATTACA
62177996 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:62179530 original size:126 final size:126
Alignment explanation
Indices: 62179299--62179567 Score: 423
Period size: 126 Copynumber: 2.1 Consensus size: 126
62179289 AATATAAGGA
* * * * *
62179299 AATATTTCGAATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCAATTTTTCATTC
1 AATATTTCGTATTTGGAGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* *
62179364 AACTAAAATACGGAATATCCTTTTGAAATTACATCTATGTTTTCTTAAATTAAAACT-AGGC
66 AACTAAAATACAGAATATCCTTTTGAAATTACATCCATGTTTTCTTAAATTAAAA-TGAGGC
62179425 AATATTTCGTATTTGGAGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
1 AATATTTCGTATTTGGAGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* *
62179490 GACTAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGC
66 AACTAAAATACAGAATATCCTTTTGAAATTACATCCATGTTTTCTTAAATTAAAATGAGGC
* *
62179551 AATGTTTTGTATTTGGA
1 AATATTTCGTATTTGGA
62179568 AATTCGGTAA
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.01
126 130 0.99
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (126 bp):
AATATTTCGTATTTGGAGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
AACTAAAATACAGAATATCCTTTTGAAATTACATCCATGTTTTCTTAAATTAAAATGAGGC
Found at i:62182092 original size:16 final size:16
Alignment explanation
Indices: 62182068--62182105 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
62182058 TTTGGTTCGC
* *
62182068 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
62182084 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
62182100 TGTAAT
1 TGTAAT
62182106 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:62182150 original size:45 final size:44
Alignment explanation
Indices: 62182084--62182178 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
62182074 GGATTAGAGG
*
62182084 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
62182129 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
62182173 TGTAAT
1 TGTAAT
62182179 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:62182359 original size:18 final size:17
Alignment explanation
Indices: 62182338--62182372 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62182328 TTATTATTAA
*
62182338 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62182356 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62182373 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62183004 original size:6 final size:6
Alignment explanation
Indices: 62182993--62183023 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
62182983 ATTTTCAGGA
62182993 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT C
1 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT C
62183024 AATTTCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGCAT
Found at i:62192649 original size:22 final size:22
Alignment explanation
Indices: 62192623--62192666 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
62192613 ATAAAAATAC
*
62192623 ATTAAATATGTATAATATTAAA
1 ATTAAATAGGTATAATATTAAA
*
62192645 ATTAAATAGGTATTATATTAAA
1 ATTAAATAGGTATAATATTAAA
62192667 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
ATTAAATAGGTATAATATTAAA
Found at i:62193148 original size:19 final size:18
Alignment explanation
Indices: 62193107--62193141 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62193097 AAATTTAAAT
*
62193107 TTAAATTATATATTTTTA
1 TTAAATTAAATATTTTTA
*
62193125 TTAAATTAAATCTTTTT
1 TTAAATTAAATATTTTT
62193142 GTATAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATTAAATATTTTTA
Found at i:62193214 original size:20 final size:18
Alignment explanation
Indices: 62193182--62193226 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
62193172 AAATATATAA
*
62193182 ATACATAAAAATTAA--T
1 ATACATAAAATTTAATTT
*
62193198 ATATATAAAATTTAATTT
1 ATACATAAAATTTAATTT
62193216 ATACATAAAAT
1 ATACATAAAAT
62193227 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
18 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
ATACATAAAATTTAATTT
Found at i:62193627 original size:22 final size:21
Alignment explanation
Indices: 62193602--62193680 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 21
62193592 TATTAAAAAT
62193602 AAATTAAAATAAAAAATTTTAA
1 AAATTAAAA-AAAAAATTTTAA
*
62193624 AAA-T-ACAAAAAAATTATTAA
1 AAATTAAAAAAAAAATT-TTAA
*
62193644 AAATCTCAAAAAAAAAA-CTTATA
1 AAAT-T-AAAAAAAAAATTTTA-A
*
62193667 AAATTATAAAAAAA
1 AAATTAAAAAAAAA
62193681 TAATAATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
19 8 0.17
20 9 0.19
21 9 0.19
22 8 0.17
23 5 0.11
24 8 0.17
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATTAAAAAAAAAATTTTAA
Found at i:62193635 original size:20 final size:21
Alignment explanation
Indices: 62193612--62193657 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
62193602 AAATTAAAAT
62193612 AAAAAATT-TTAAAAAT-ACA
1 AAAAAATTATTAAAAATCACA
*
62193631 AAAAAATTATTAAAAATCTCA
1 AAAAAATTATTAAAAATCACA
62193652 AAAAAA
1 AAAAAA
62193658 AAACTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.33
20 8 0.33
21 8 0.33
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTATTAAAAATCACA
Found at i:62193636 original size:26 final size:27
Alignment explanation
Indices: 62193585--62193637 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62193575 TACACTTGTC
*
62193585 AAAAAATTATTAAAAATAAATTAAAAT
1 AAAAAATTATTAAAAATAAATAAAAAT
62193612 AAAAAATT-TTAAAAATACAA-AAAAAT
1 AAAAAATTATTAAAAATA-AATAAAAAT
62193638 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (27 bp):
AAAAAATTATTAAAAATAAATAAAAAT
Found at i:62193680 original size:46 final size:45
Alignment explanation
Indices: 62193585--62193681 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
62193575 TACACTTGTC
* * *
62193585 AAAAAATTATTAAAAATAAATTAAAATAAAAAATTTTAAAAATACA
1 AAAAAATTATTAAAAAT-AATCAAAATAAAAAATTATAAAAATAAA
* * *
62193631 AAAAAATTATTAAAAAT-CTCAAAA-AAAAAACTTATAAAATTATA
1 AAAAAATTATTAAAAATAATCAAAATAAAAAA-TTATAAAAATAAA
62193675 AAAAAAT
1 AAAAAAT
62193682 AATAATTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 6 0.13
44 22 0.49
46 17 0.38
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (45 bp):
AAAAAATTATTAAAAATAATCAAAATAAAAAATTATAAAAATAAA
Found at i:62194074 original size:3 final size:3
Alignment explanation
Indices: 62194066--62194091 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62194056 TATCCCTTCA
62194066 ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC AC
62194092 ATATACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:62196216 original size:47 final size:46
Alignment explanation
Indices: 62196064--62196328 Score: 174
Period size: 47 Copynumber: 5.7 Consensus size: 46
62196054 ATAAATTGTC
* *
62196064 GATGCCATGTCCCAGACATGTTCTTACACTGGCTCTCATATATG-CGTGCT
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTATC-T-T-TGTCGAGCT
* * * *
62196114 GATGCATGTCCCAGACATGTCTTACACT-ACACAACTCT-T--AGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTTTGTCGAGCT
* *
62196157 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTTTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTTTGTCGA-GCT
** *
62196204 GATGCATGTCCCAGACATGTCTTACTTTGGCACTCATCTTTGT-G-CCT
1 GATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTTTGTCGAGCT
* * * * *
62196251 -ATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAATGT-G-CCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-TTGTCGAGCT
62196298 GGA-GCATGTCCCAGACATGTCTTACACTGGC
1 -GATGCATGTCCCAGACATGTCTTACACTGGC
62196329 GTACACACTG
Statistics
Matches: 174, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
43 33 0.19
44 2 0.01
45 3 0.02
46 19 0.11
47 66 0.38
48 20 0.11
49 19 0.11
50 12 0.07
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTTTGTCGAGCT
Found at i:62202303 original size:11 final size:11
Alignment explanation
Indices: 62202287--62202311 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62202277 TCGAAGAAAA
62202287 TATTTTATTAT
1 TATTTTATTAT
62202298 TATTTTATTAT
1 TATTTTATTAT
62202309 TAT
1 TAT
62202312 AACATGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:62203589 original size:45 final size:45
Alignment explanation
Indices: 62203483--62203590 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 45
62203473 AGTGTAAGGG
* * * *
62203483 ATGTCTGGGACATGCATTGGCCTTGATACGTAAGTTAGTGTAAGAC
1 ATGTCTGGGACATGCATTGGCCTCGAGACGT-AGTCAGTGTAAAAC
* *
62203529 ATGTTTGGGACATGCATTGG-CTACGAGATGT-GTCAGTGTAAAACC
1 ATGTCTGGGACATGCATTGGCCT-CGAGACGTAGTCAGTGTAAAA-C
62203574 ATGTCTGGGACATGCAT
1 ATGTCTGGGACATGCAT
62203591 CGGCATGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
44 10 0.19
45 19 0.36
46 24 0.45
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (45 bp):
ATGTCTGGGACATGCATTGGCCTCGAGACGTAGTCAGTGTAAAAC
Found at i:62203631 original size:49 final size:48
Alignment explanation
Indices: 62203563--62203737 Score: 169
Period size: 49 Copynumber: 3.6 Consensus size: 48
62203553 GAGATGTGTC
*
62203563 AGTGTAAAACCATGTCTGGGACAT-GCATCGGCATGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA--TGAGAGCT
* * * * *
62203612 ATTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATAATGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAT-ATGAGAGCT
* * ** * *
62203660 CAGTGTAAGACCTTTTCTGGGACATGGCATCAACTTGAGATAT--GAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATG-GATATGAGAGCT
62203708 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
62203738 AGTATTCTAC
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 30 0.29
48 1 0.01
49 56 0.54
50 15 0.15
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGAGAGCT
Found at i:62210993 original size:46 final size:49
Alignment explanation
Indices: 62210889--62211207 Score: 242
Period size: 46 Copynumber: 6.7 Consensus size: 49
62210879 AGGTTATTGT
* * * **
62210889 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-CCGGCATTTAGACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGAC-TCGAGACGTA
62210937 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGACTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGAGACGTA
* * *
62210984 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCAT-TGGCTAC-ATGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGACT-CGA-GACGTA
* * * * *
62211029 G-TC-AGTGTAAGACCATGTCTGGGACATTGCATCAG-CATGGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGAC-TCGAGACGT-A
* * * * *
62211077 GAGCTCGTGTAAGACCATTTCTGGGACATGGCGTCGGCCTCGATGACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGA-GACGTA
* * *
62211126 TAG-TCAGTGTAAGACCTTGTCTGGGACATGGCATC-GACTTGAGA--TA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGAGACGTA
*
62211172 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
62211208 GGTATTCTAC
Statistics
Matches: 220, Mismatches: 31, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.04
45 19 0.09
46 55 0.25
47 54 0.25
48 20 0.09
49 30 0.14
50 30 0.14
51 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGAGACGTA
Found at i:62214550 original size:19 final size:19
Alignment explanation
Indices: 62214528--62214565 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
62214518 ATAAACAAAT
62214528 TGTTTCTTCA-AAGTAAAAA
1 TGTTT-TTCACAAGTAAAAA
*
62214547 TGTTTTTTACAAGTAAAAA
1 TGTTTTTCACAAGTAAAAA
62214566 ATTAGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
TGTTTTTCACAAGTAAAAA
Found at i:62216798 original size:46 final size:45
Alignment explanation
Indices: 62216731--62216824 Score: 161
Period size: 46 Copynumber: 2.1 Consensus size: 45
62216721 AACATGCACT
62216731 TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAAGCTA
1 TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAA-CTA
* *
62216777 TCTACATGTATAATGCAAGATTATTGCAAACTTGATGCTAAACTA
1 TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAACTA
62216822 TCT
1 TCT
62216825 GCAACTGCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 6 0.13
46 40 0.87
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (45 bp):
TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAACTA
Found at i:62219254 original size:48 final size:48
Alignment explanation
Indices: 62219178--62219269 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
62219168 TACCACGGTT
*
62219178 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* *
62219226 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTATACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
62219270 GTTAATTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:62223483 original size:22 final size:25
Alignment explanation
Indices: 62223453--62223519 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
62223443 AAAAACAAAT
62223453 AAATAATAAAAATTACAAA-T-C-C
1 AAATAATAAAAATTACAAACTACAC
* *
62223475 AACTAATAAATAA-CACAACACTACAC
1 AAATAATAAA-AATTACAA-ACTACAC
62223501 AAATAATAAAAATTACAAA
1 AAATAATAAAAATTACAAA
62223520 ACAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
22 13 0.37
23 3 0.09
24 1 0.03
25 4 0.11
26 14 0.40
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.19
Consensus pattern (25 bp):
AAATAATAAAAATTACAAACTACAC
Found at i:62223518 original size:26 final size:22
Alignment explanation
Indices: 62223453--62223529 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 22
62223443 AAAAACAAAT
62223453 AAATAATAAAAATTACAAATCC
1 AAATAATAAAAATTACAAATCC
* *
62223475 AACTAATAAATAA-CACAACACTACAC
1 AAATAATAAA-AATTACAA-A-T-C-C
*
62223501 AAATAATAAAAATTACAAA-AC
1 AAATAATAAAAATTACAAATCC
62223522 AAATAATA
1 AAATAATA
62223530 CCCACAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
21 9 0.20
22 13 0.30
23 3 0.07
24 1 0.02
25 4 0.09
26 14 0.32
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (22 bp):
AAATAATAAAAATTACAAATCC
Found at i:62225485 original size:49 final size:49
Alignment explanation
Indices: 62225394--62225490 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
62225384 ATTTATTTAT
* * ** * *
62225394 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATGGATGAAGTGTAGTA
1 AGGTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
* *
62225443 AGGTTGGAAAACATTATTCTAATTAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
62225491 TCTATATGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (49 bp):
AGGTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:62230065 original size:99 final size:100
Alignment explanation
Indices: 62229955--62230154 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
62229945 AATTTGACAA
62229955 TTCATATTATAAATAAATTTAAATAATTTATAAC-TTTTTTTATATCTTTTAATTCTTGATAAAA
1 TTCATATTATAAATAAATTTAAATAATTTATAACTTTTTTTTATATCTTTTAATTCTTGATAAAA
62230019 ATAATATCATAAATTATTTATTTAAATATGTAATG
66 ATAATATCATAAATTATTTATTTAAATATGTAATG
62230054 TTCATATTATAAATAAATTTAAATAATTTATAACTTTTTTTTATATCTTTTAATTCTTGATAAAA
1 TTCATATTATAAATAAATTTAAATAATTTATAACTTTTTTTTATATCTTTTAATTCTTGATAAAA
62230119 ATAATATCATAAATTATTTATTTAAATATGTAATG
66 ATAATATCATAAATTATTTATTTAAATATGTAATG
62230154 T
1 T
62230155 AAGTTTAGTT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 34 0.34
100 66 0.66
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (100 bp):
TTCATATTATAAATAAATTTAAATAATTTATAACTTTTTTTTATATCTTTTAATTCTTGATAAAA
ATAATATCATAAATTATTTATTTAAATATGTAATG
Found at i:62232031 original size:19 final size:19
Alignment explanation
Indices: 62232009--62232048 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
62231999 AATTATTCTT
62232009 TCACTAATTACACATATAC
1 TCACTAATTACACATATAC
* *
62232028 TCACTAATTATACTTATAC
1 TCACTAATTACACATATAC
62232047 TC
1 TC
62232049 TTAACAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (19 bp):
TCACTAATTACACATATAC
Found at i:62235329 original size:35 final size:36
Alignment explanation
Indices: 62235266--62235335 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
62235256 TGTGAAAGAG
* *
62235266 AATATGAGGGTATGTTATTCATGCCATGTGACAGTA
1 AATATGAGAGTATGTTATTCATACCATGTGACAGTA
*
62235302 AATATGTGAGTATGTT-TTCATACCATGTGACAGT
1 AATATGAGAGTATGTTATTCATACCATGTGACAGT
62235336 GATTATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (36 bp):
AATATGAGAGTATGTTATTCATACCATGTGACAGTA
Found at i:62238528 original size:30 final size:30
Alignment explanation
Indices: 62238491--62238773 Score: 184
Period size: 30 Copynumber: 9.4 Consensus size: 30
62238481 GGTCGTCACC
62238491 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* * * * *
62238521 ATTCCTTTTCATATTTTTGAT-GGTCGTCA-CC
1 ATCCCTTTTCATA-GTTTGATAGCT-G-AAGCT
* *
62238552 ATCCCGTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* *
62238582 ATCCCTTTTAATAATTTGATAGC-GAAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTG-AAGCT
** * * *
62238612 ATCCCTTTTCATAGTTCAATGGTCAT-CA-CC
1 ATCCCTTTTCATAGTTTGATAG-C-TGAAGCT
* * *
62238642 ATCCCTTTCCATAGTTTGATGGTCAT-CA-CT
1 ATCCCTTTTCATAGTTTGATAG-C-TGAAGCT
* * **
62238672 ATCCCTTTTCATAATTTGACAGCCAAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* * * *
62238702 ACCCCTTTTCATGGTTCGATAGCTGAAACT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* **
62238732 ATCCCTTTTCATAGTTCGATAGCTGAATTT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
*
62238762 ATACCTTTTCAT
1 ATCCCTTTTCAT
62238774 TTGGTTGATG
Statistics
Matches: 197, Mismatches: 45, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
29 4 0.02
30 170 0.86
31 22 0.11
32 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTGATAGCTGAAGCT
Found at i:62238541 original size:90 final size:91
Alignment explanation
Indices: 62238388--62238713 Score: 356
Period size: 90 Copynumber: 3.6 Consensus size: 91
62238378 GTAAAATCAC
* * * * * *
62238388 GATGGTTGACACCATCCCTTTCCATAATTCGATAG-TCGAAGCTATTCCTTTTTATATTTTTGAT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCT-GAAGCTATCCCTTTTCATATTTTTGAT
*
62238452 GGCCGTCACCATCCCTTTTCATAG-TT
65 GGTCGTCACCATCCCTTTTCATAGTTT
* *
62238478 GATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCTATTCCTTTTCATATTTTTGATG
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATATTTTTGATG
*
62238543 GTCGTCACCATCCCGTTTCATAGTTT
66 GTCGTCACCATCCCTTTTCATAGTTT
* * * * * * **
62238569 GATAGCCG-AAGCTATCCCTTTTAATAATTTGATAGC-GAAAGCTATCCCTTTTCATA-GTTCAA
1 GATGGTCGTCA-CCATCCCTTTTCATAATTTGATAGCTG-AAGCTATCCCTTTTCATATTTTTGA
* *
62238631 TGGTCATCACCATCCCTTTCCATAGTTT
64 TGGTCGTCACCATCCCTTTTCATAGTTT
* * * ** *
62238659 GATGGTCATCACTATCCCTTTTCATAATTTGACAGCCAAAGCTACCCCTTTTCAT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCAT
62238714 GGTTCGATAG
Statistics
Matches: 201, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
90 152 0.76
91 49 0.24
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (91 bp):
GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATATTTTTGATG
GTCGTCACCATCCCTTTTCATAGTTT
Found at i:62238552 original size:61 final size:61
Alignment explanation
Indices: 62238462--62238590 Score: 208
Period size: 61 Copynumber: 2.1 Consensus size: 61
62238452 GGCCGTCACC
* * *
62238462 ATCCCTTTTCATA--GTTGATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCT
1 ATCCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
*
62238521 ATTCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
62238582 ATCCCTTTT
1 ATCCCTTTT
62238591 AATAATTTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 12 0.19
61 51 0.81
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (61 bp):
ATCCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
Found at i:62238708 original size:60 final size:60
Alignment explanation
Indices: 62238462--62238754 Score: 236
Period size: 60 Copynumber: 4.9 Consensus size: 60
62238452 GGCCGTCACC
* * **
62238462 ATCCCTTTTCATAG-TTGATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTTGATGGTCATCACTATCCCTTTTCATAGTTTGATAGCCAAAGCT
* * * * * *
62238521 ATTCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATA-GTTTGATGGTCATCACTATCCCTTTTCATAGTTTGATAGCCAAAGCT
* * * * ** * * * *
62238582 ATCCCTTTTAATAATTTGATAG-CGA-AAGCTATCCCTTTTCATAGTTCAATGGTCATCA-CC
1 ATCCCTTTTCATAGTTTGATGGTC-ATCA-CTATCCCTTTTCATAGTTTGATAGCCA-AAGCT
* * *
62238642 ATCCCTTTCCATAGTTTGATGGTCATCACTATCCCTTTTCATAATTTGACAGCCAAAGCT
1 ATCCCTTTTCATAGTTTGATGGTCATCACTATCCCTTTTCATAGTTTGATAGCCAAAGCT
* * * * * * *
62238702 ACCCCTTTTCATGGTTCGATAGCTGA-AACTATCCCTTTTCATAGTTCGATAGC
1 ATCCCTTTTCATAGTTTGAT-GGTCATCACTATCCCTTTTCATAGTTTGATAGC
62238755 TGAATTTATA
Statistics
Matches: 183, Mismatches: 42, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
59 15 0.08
60 108 0.59
61 60 0.33
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (60 bp):
ATCCCTTTTCATAGTTTGATGGTCATCACTATCCCTTTTCATAGTTTGATAGCCAAAGCT
Found at i:62238736 original size:90 final size:90
Alignment explanation
Indices: 62238459--62238747 Score: 237
Period size: 90 Copynumber: 3.2 Consensus size: 90
62238449 GATGGCCGTC
* * * * * * ** *
62238459 ACCATCCCTTTTCATAG-TTGATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCTAT
1 ACCATCCCTTTCCATAGTTTGATGGTCATCACTATCCCTTTTAATAATTTGACAGCCAAAGCTAC
* * ** * * *
62238523 TCCTTTTCATATTTTTGATGGTCGTC
66 CCCTTTTCATA-GTTCAATGCTCATA
* * * *
62238549 ACCATCCCGTTT-CATAGTTTGATAGCCGA--AGCTATCCCTTTTAATAATTTGATAGCGAAAGC
1 ACCATCCC-TTTCCATAGTTTGATGGTC-ATCA-CTATCCCTTTTAATAATTTGACAGCCAAAGC
* * *
62238611 TATCCCTTTTCATAGTTCAATGGTCATC
63 TACCCCTTTTCATAGTTCAATGCTCATA
*
62238639 ACCATCCCTTTCCATAGTTTGATGGTCATCACTATCCCTTTTCATAATTTGACAGCCAAAGCTAC
1 ACCATCCCTTTCCATAGTTTGATGGTCATCACTATCCCTTTTAATAATTTGACAGCCAAAGCTAC
* * *
62238704 CCCTTTTCATGGTTCGATAGCTGA-A
66 CCCTTTTCATAGTTCAAT-GCTCATA
* *
62238729 ACTATCCCTTTTCATAGTT
1 ACCATCCCTTTCCATAGTT
62238748 CGATAGCTGA
Statistics
Matches: 165, Mismatches: 26, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
89 4 0.02
90 108 0.65
91 53 0.32
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (90 bp):
ACCATCCCTTTCCATAGTTTGATGGTCATCACTATCCCTTTTAATAATTTGACAGCCAAAGCTAC
CCCTTTTCATAGTTCAATGCTCATA
Found at i:62238769 original size:90 final size:90
Alignment explanation
Indices: 62238549--62238773 Score: 231
Period size: 90 Copynumber: 2.5 Consensus size: 90
62238539 GATGGTCGTC
* * * * * * *
62238549 ACCATCCCGTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTAATAATTTGATAGCGAAAGCTAT
1 ACCATCCCTTTTCATAGTTTGATAGCTGAATCTATCCCTTTTCATAATTTGACAGCCAAAGCTAC
* *
62238614 CCCTTTTCATAGTTCAATGGTCATC
66 CCCTTTTCATAGTTCAATGCTCATA
* * *
62238639 ACCATCCCTTTCCATAGTTTGAT-GGT-CATCACTATCCCTTTTCATAATTTGACAGCCAAAGCT
1 ACCATCCCTTTTCATAGTTTGATAGCTGAAT--CTATCCCTTTTCATAATTTGACAGCCAAAGCT
* * *
62238702 ACCCCTTTTCATGGTTCGATAGCTGA-A
64 ACCCCTTTTCATAGTTCAAT-GCTCATA
* * * *
62238729 ACTATCCCTTTTCATAGTTCGATAGCTGAATTTATACCTTTTCAT
1 ACCATCCCTTTTCATAGTTTGATAGCTGAATCTATCCCTTTTCAT
62238774 TTGGTTGATG
Statistics
Matches: 108, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 99 0.92
91 5 0.05
92 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (90 bp):
ACCATCCCTTTTCATAGTTTGATAGCTGAATCTATCCCTTTTCATAATTTGACAGCCAAAGCTAC
CCCTTTTCATAGTTCAATGCTCATA
Found at i:62248449 original size:42 final size:43
Alignment explanation
Indices: 62248353--62248509 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
62248343 AACTCGTACA
* * *
62248353 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTACATGAAATCAAATATCG
* * * *
62248396 ATGCCACTGTCCTAAACAGGGTCTTATATGAAATCATATA-CG
1 ATGCCAATGTCCCAAACAGGGTCTTACATGAAATCAAATATCG
* * * *
62248438 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-GTCG
1 ATGCCAATGTCCCAAACAGGGTCTTACATG-AAATCA-AATATCG
* * * *
62248482 AAGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAAACAGGGTCTTACA
62248510 CGATATCACA
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 26 0.28
43 37 0.40
44 30 0.32
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACATGAAATCAAATATCG
Found at i:62250320 original size:27 final size:27
Alignment explanation
Indices: 62250228--62250377 Score: 144
Period size: 27 Copynumber: 5.5 Consensus size: 27
62250218 ATATTGAGCC
* *
62250228 CGCACACTCAGTGCTATACA-A-TCAAAT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * *
62250255 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
62250283 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
62250310 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
62250337 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
62250364 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62250378 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 75 0.74
28 23 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:62258331 original size:27 final size:27
Alignment explanation
Indices: 62258239--62258388 Score: 135
Period size: 27 Copynumber: 5.5 Consensus size: 27
62258229 ATATTGAGCC
* *
62258239 CGCACACTCAGTGCTATACA-A-TCAAAT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * *
62258266 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
62258294 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * * *
62258321 CGCACACTTAGTGCATCAAATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
62258348 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
62258375 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62258389 TGTACAATTT
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 73 0.73
28 23 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:62278931 original size:40 final size:40
Alignment explanation
Indices: 62278876--62279108 Score: 421
Period size: 40 Copynumber: 5.8 Consensus size: 40
62278866 GAATACACAT
* *
62278876 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
62278916 CACCAGTACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
62278956 CACCAGCACGTATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
62278996 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
62279036 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
62279076 CTCCAGCACGTATGCTCTTCGGGACTTAGCCCG
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCG
62279109 AATCATATAT
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 186 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:62280654 original size:46 final size:46
Alignment explanation
Indices: 62280598--62280728 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
62280588 TATATATACA
* * * * *
62280598 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCCCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCCATATC
* * *
62280644 CATCTTATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCCATATC
62280690 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
62280729 ATATATATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCCCATATC
Found at i:62280783 original size:47 final size:47
Alignment explanation
Indices: 62280708--62281041 Score: 436
Period size: 47 Copynumber: 7.1 Consensus size: 47
62280698 ACACATTTCG
* * * * * *
62280708 CATTAGCCATTCGGCTTTACCATATATATACACT-TCCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* * * *
62280755 CATTGGCCATTCTGCCTTGTCGCGTATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
62280802 CATTGGCCATTCGGCCCTAACACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
62280849 CATTGGCCATTCGGCCCTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
62280896 CATTGGCCATTCGGCCTCATCACACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACATTCATCA
62280945 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** * * **
62280992 CATTTTCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
62281039 CAT
1 CAT
62281042 AAAATCCTAA
Statistics
Matches: 256, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.00
47 210 0.82
49 45 0.18
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:62280974 original size:143 final size:141
Alignment explanation
Indices: 62280733--62281041 Score: 440
Period size: 143 Copynumber: 2.2 Consensus size: 141
62280723 TTTACCATAT
* ** * *
62280733 ATATACAC-TTCCACATTCATCACATTGGCCATTCTGCCTTGTCGCGTATATGCATGTTCACATT
1 ATATACACATT-CACATTCATCACATTGGCCATTCGGCCTTCACACATATATGCATGTTCACATT
62280797 CATCACATTGGCCATTCGGCCCTAACACACATATGCATGTTCACATTCATCACATTGGCCATTCG
65 CATCACATTGGCCATTCGGCCCTAACACACATATGCATGTTCACATTCATCACATTGGCCATTCG
62280862 GCCCTATCACAC
130 GCCCTATCACAC
* **
62280874 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATATATGCATGTTCACAT
1 ATATACACATTCACATTCATCACATTGGCCATTCGGCCT--TCACACATATATGCATGTTCACAT
* * * **
62280939 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTTTCCATTC
64 TCATCACATTGGCCATTCGGCCCTAACACACATATGCATGTTCACATTCATCACATTGGCCATTC
* * *
62281004 GGCCTTATCTCAT
129 GGCCCTATCACAC
62281017 ATATACACATTCACATTCATCACAT
1 ATATACACATTCACATTCATCACAT
62281042 AAAATCCTAA
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
141 33 0.22
142 2 0.01
143 112 0.76
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (141 bp):
ATATACACATTCACATTCATCACATTGGCCATTCGGCCTTCACACATATATGCATGTTCACATTC
ATCACATTGGCCATTCGGCCCTAACACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
CCCTATCACAC
Found at i:62281042 original size:25 final size:25
Alignment explanation
Indices: 62280963--62281042 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 25
62280953 ATTCGGCCTT
* **
62280963 ATCACATATATGCATGTTCACATTC
1 ATCACATATATACACATTCACATTC
* * *
62280988 ATCACAT-T-TTC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
62281010 ATCTCATATATACACATTCACATTC
1 ATCACATATATACACATTCACATTC
62281035 ATCACATA
1 ATCACATA
62281043 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:62284335 original size:28 final size:29
Alignment explanation
Indices: 62284224--62284342 Score: 186
Period size: 29 Copynumber: 4.1 Consensus size: 29
62284214 GAAAGCATGT
*
62284224 ATATGAATGTTATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
62284253 ATTTGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
62284282 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
62284311 ATATGAATAAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
62284339 ATAT
1 ATAT
62284343 ACATGTATGT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 20 0.24
29 63 0.76
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:62286111 original size:40 final size:41
Alignment explanation
Indices: 62286056--62286149 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 41
62286046 CAACTATGAT
*
62286056 TGGCACTAAGTGTGCG-GTTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGAG-TTAACATAGCTTCGGCTATAGAA
**
62286096 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTATAGAA
62286137 -GGCACTAAGTGTG
1 TGGCACTAAGTGTG
62286150 TGATACCGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTATAGAA
Found at i:62289668 original size:28 final size:28
Alignment explanation
Indices: 62289625--62289730 Score: 135
Period size: 28 Copynumber: 3.8 Consensus size: 28
62289615 CATAACTGTA
62289625 AATGTGATTGGGCCTAAT-GGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* *
62289652 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
62289681 AATGTGA-TGGAGCCTAATGGGCCATATG
1 AATGTGATTGG-GCCTAATGGGCCATATG
* * *
62289709 AAAGAGATTGGGCCTAAAGGGC
1 AATGTGATTGGGCCTAATGGGC
62289731 TATTGATAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.15
28 41 0.60
29 17 0.25
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:62289720 original size:56 final size:56
Alignment explanation
Indices: 62289623--62289730 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
62289613 AGCATAACTG
* * *
62289623 TAAATGTGATTGGGCCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAAAGGGCCACA
62289679 TAAATGTGA-TGGAGCCTAATGGGCCATATGAAAGAGA-TTGGGCCTAAAGGGC
1 TAAATGTGATTGG-GCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAAAGGGC
62289731 TATTGATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
55 3 0.06
56 30 0.64
57 14 0.30
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.25
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAAAGGGCCACA
Found at i:62290342 original size:23 final size:22
Alignment explanation
Indices: 62290306--62290381 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 22
62290296 TAGTTATGAC
*
62290306 TAAATTATGTTTTGAATTGTATAA
1 TAAA-TATTTTTTGAATTGTAT-A
62290330 TAAATATTTTTTGAATCTTGT-TA
1 TAAATATTTTTTGAA--TTGTATA
62290353 T---TATTTTTTGAATTGTATGA
1 TAAATATTTTTTGAATTGTAT-A
62290373 TAAATATTT
1 TAAATATTT
62290382 AACTTGTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
18 4 0.09
19 1 0.02
20 13 0.30
23 17 0.39
24 5 0.11
25 4 0.09
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.55
Consensus pattern (22 bp):
TAAATATTTTTTGAATTGTATA
Found at i:62293234 original size:49 final size:48
Alignment explanation
Indices: 62293170--62293394 Score: 254
Period size: 49 Copynumber: 4.5 Consensus size: 48
62293160 CTAGTACGCA
62293170 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTAT-CAGTACACG
* ** ** * *
62293219 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACC
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCAG-TACACG
* * * * *
62293269 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGATGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCA-ATTATCA-GTACACG
*
62293320 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATC-AGTACACG
62293369 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
62293395 CGTGACCTCA
Statistics
Matches: 145, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
49 70 0.48
50 39 0.27
51 34 0.23
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGTACACG
Found at i:62304788 original size:29 final size:28
Alignment explanation
Indices: 62304725--62304825 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
62304715 TACCTGTATC
* *
62304725 TGGCCCATTAAGCCCAAAAT-A-TTCATA
1 TGGCCCATTAGGCCC-AAATCACTTTATA
*
62304752 TGACCCATTAGGCCCAAATCACTTGTATA
1 TGGCCCATTAGGCCCAAATCACTT-TATA
62304781 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCAC-TTTATA
* *
62304810 TGGCTCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
62304826 GTCACATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.06
27 14 0.22
28 2 0.03
29 42 0.66
30 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACTTTATA
Found at i:62305070 original size:16 final size:16
Alignment explanation
Indices: 62305049--62305093 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
62305039 GTAGCAAAAC
62305049 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
* *
62305065 TTTCAGTTTTTCGACT
1 TTTCAGCTTTTCGACA
* *
62305081 TTTTAGCATTTCG
1 TTTCAGCTTTTCG
62305094 GCTTTTACCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:62306390 original size:16 final size:17
Alignment explanation
Indices: 62306359--62306396 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
62306349 ACAAAGAAAG
62306359 TTTGGGATTTCAAGATT
1 TTTGGGATTTCAAGATT
*
62306376 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCAAGATT
62306392 TTTGG
1 TTTGG
62306397 CACATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.16, C:0.05, G:0.29, T:0.50
Consensus pattern (17 bp):
TTTGGGATTTCAAGATT
Found at i:62308075 original size:16 final size:16
Alignment explanation
Indices: 62308054--62308085 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62308044 GTTGTAACAC
62308054 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
62308070 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
62308086 TCTCGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCCTGAAA
Found at i:62309593 original size:28 final size:27
Alignment explanation
Indices: 62309550--62309653 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 27
62309540 CATAACTGTA
*
62309550 AATGTGATTGGGCCTAATGGCCGTATG
1 AATGTGATTGGGCCTAATGGCCATATG
* *
62309577 AATGTGATTTGGGCCTAATGGACCACATA
1 AATGTGA-TTGGGCCTAATGG-CCATATG
62309606 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAAT-GGCCATATG
* * *
62309634 AAAGAGATTGGGTCTAATGG
1 AATGTGATTGGGCCTAATGG
62309654 GCTATATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 9 0.14
28 44 0.67
29 13 0.20
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (27 bp):
AATGTGATTGGGCCTAATGGCCATATG
Found at i:62309645 original size:56 final size:56
Alignment explanation
Indices: 62309548--62309653 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
62309538 AGCATAACTG
* * *
62309548 TAAATGTGATTGGGCCTAATGGCCGTATGAATGTGATTTGGGCCTAATGGACCACA
1 TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGACCACA
*
62309604 TAAATGTGATTGGGCCTAATGGGCCATATGAAAGAGA-TTGGGTCTAATGG
1 TAAATGTGATTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGG
62309654 GCTATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 32 0.71
57 13 0.29
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGACCACA
Found at i:62313344 original size:40 final size:40
Alignment explanation
Indices: 62313285--62313426 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
62313275 TATTCGGATG
*
62313285 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * *
62313325 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
62313365 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
*
62313405 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62313427 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 14 0.16
40 73 0.83
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:62320048 original size:29 final size:29
Alignment explanation
Indices: 62319985--62320052 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
62319975 TAATCAACCG
62319985 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
62320014 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
62320043 CGCACACTTA
1 CGCACACTTA
62320053 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:62320165 original size:174 final size:174
Alignment explanation
Indices: 62319874--62320201 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
62319864 AACTCAAGGT
* *
62319874 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
62319939 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
62320004 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
62320048 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
62320113 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
62320178 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
62320202 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:62320193 original size:29 final size:30
Alignment explanation
Indices: 62320154--62320232 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
62320144 CTTAATAATC
62320154 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
62320184 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
62320213 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62320233 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:62323791 original size:40 final size:40
Alignment explanation
Indices: 62323736--62323960 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
62323726 TATTCGGATG
*
62323736 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
62323776 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
62323819 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
62323859 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
62323899 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
62323939 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62323961 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 14 0.09
40 108 0.67
41 3 0.02
42 2 0.01
43 35 0.22
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:62323881 original size:83 final size:80
Alignment explanation
Indices: 62323736--62323960 Score: 278
Period size: 83 Copynumber: 2.8 Consensus size: 80
62323726 TATTCGGATG
* * *
62323736 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
62323801 TTTGTGCGAGTAGTTGCT
66 TGTGTGC--G-AGTTACT
* *
62323819 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGC
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGC
62323883 ATGTGTGCGAGTTACT
65 ATGTGTGCGAGTTACT
* * *
62323899 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
62323961 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 42 0.33
81 5 0.04
82 2 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TGTGTGCGAGTTACT
Found at i:62324486 original size:31 final size:31
Alignment explanation
Indices: 62324451--62324517 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
62324441 TTTGGTAATG
62324451 TATATATTTGGATAGCCATGCGAAAATGGCT
1 TATATATTTGGATAGCCATGCGAAAATGGCT
62324482 TATATATTTGGATAGCCATGCGAAAATGGCT
1 TATATATTTGGATAGCCATGCGAAAATGGCT
62324513 TATAT
1 TATAT
62324518 CTAATTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (31 bp):
TATATATTTGGATAGCCATGCGAAAATGGCT
Found at i:62332146 original size:27 final size:27
Alignment explanation
Indices: 62332116--62332286 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
62332106 TGGATAAGTT
*
62332116 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAGG
** *
62332143 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
** *
62332170 GTAGAATTACTGAAATACCCATTGTAGG
1 GTAGAATTACCAAAATACCC-CTGTAGG
* * *
62332198 ATAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
*
62332225 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
* * * *
62332252 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCCTGTAGG
*
62332279 GTAAAATT
1 GTAGAATT
62332287 TCTGTTTTAC
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAGG
Found at i:62332217 original size:55 final size:53
Alignment explanation
Indices: 62332116--62332261 Score: 193
Period size: 55 Copynumber: 2.7 Consensus size: 53
62332106 TGGATAAGTT
*
62332116 GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCAAAATACCCCTGT-AGGTAGAATTACTAAAATACCCCTATAGG
** * * *
62332170 GTAGAATTACTGAAATACCCATTGTAGGATAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCC-CTGTAGG-TAGAATTACTAAAATACCCCTATAGG
*
62332225 GTAGAAATACCAAAATACCCCTGTAGGGTAGAATTAC
1 GTAGAATTACCAAAATACCCCTGTA-GGTAGAATTAC
62332262 CGAGATACCC
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 34 0.43
55 45 0.57
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (53 bp):
GTAGAATTACCAAAATACCCCTGTAGGTAGAATTACTAAAATACCCCTATAGG
Found at i:62332228 original size:82 final size:81
Alignment explanation
Indices: 62332117--62332275 Score: 228
Period size: 82 Copynumber: 2.0 Consensus size: 81
62332107 GGATAAGTTG
* ** *
62332117 TAGAATTACCAAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCG
62332182 AAATACCCATTGTAGGA
66 AAATACCC-TTGTAGGA
* * * *
62332199 TAGAATTACTAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCG
*
62332264 AGATACCCTTGT
66 AAATACCCTTGT
62332276 GGGGTAAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 4 0.06
82 64 0.94
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTATAGGGTAGAATTACCG
AAATACCCTTGTAGGA
Found at i:62340395 original size:47 final size:47
Alignment explanation
Indices: 62340341--62340704 Score: 595
Period size: 47 Copynumber: 7.7 Consensus size: 47
62340331 TTAGGATTCT
* * *
62340341 ATGTGATGGATGTGAACA-TATATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
62340388 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62340435 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62340482 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
62340529 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
62340576 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
62340623 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
62340670 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62340705 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 302 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:62340879 original size:37 final size:37
Alignment explanation
Indices: 62340823--62340901 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62340813 TCGAGCTCTA
* * *
62340823 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62340860 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62340897 AAGAC
1 AAGAC
62340902 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62342558 original size:27 final size:27
Alignment explanation
Indices: 62342518--62342691 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
62342508 TGGATATGTT
* *
62342518 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
62342545 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
62342572 GTAGAATTACTGAAATACCCATTGTAGG
1 GTAGAATTACCGAAATACCC-CTGTAGG
* *
62342600 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
62342627 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
62342654 GTAGAATTACCGAGATACCCTTCTTGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
62342681 GTAAAATTACC
1 GTAGAATTACC
62342692 ATTTTGCCCC
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:62342618 original size:55 final size:53
Alignment explanation
Indices: 62342518--62342673 Score: 215
Period size: 55 Copynumber: 2.9 Consensus size: 53
62342508 TGGATATGTT
62342518 GTAGAATTA-TCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACT-GAAATACCCCTGT-AGGTAGAATTACCGAAATACCCCTATAGG
* * *
62342572 GTAGAATTACTGAAATACCCATTGTAGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCC-CTGTAGG-TAGAATTACCGAAATACCCCTATAGG
* *
62342627 GTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCC
1 GTAGAATTACTGAAATACCCCTGTA-GGTAGAATTACCGAAATACCC
62342674 TTCTTGGGTA
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
54 43 0.47
55 49 0.53
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (53 bp):
GTAGAATTACTGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTATAGG
Found at i:62342656 original size:82 final size:82
Alignment explanation
Indices: 62342519--62342673 Score: 238
Period size: 82 Copynumber: 1.9 Consensus size: 82
62342509 GGATATGTTG
* * *
62342519 TAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCG
62342584 AAATACCCATTGTAGGA
66 AAATACCCATTGTAGGA
* * * *
62342601 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCG
*
62342666 AGATACCC
66 AAATACCC
62342674 TTCTTGGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (82 bp):
TAGAATTACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCG
AAATACCCATTGTAGGA
Found at i:62343471 original size:27 final size:26
Alignment explanation
Indices: 62343433--62343492 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
62343423 ACATATATAT
* *
62343433 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
62343459 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
62343486 ATATCTG
1 ATATCTG
62343493 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:62347440 original size:38 final size:38
Alignment explanation
Indices: 62347389--62347585 Score: 277
Period size: 38 Copynumber: 5.1 Consensus size: 38
62347379 ATATTCGATG
62347389 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
62347427 TATATCCGGGTTAAATCCCGCAGTCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
62347465 TATATCCGGGCTTAAAGACCCGCAGGCTTCATGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
62347505 AATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
62347543 TATATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
62347581 TATAT
1 TATAT
62347586 TTGGGCCTTC
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
38 103 0.74
39 10 0.07
40 26 0.19
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:62347492 original size:78 final size:76
Alignment explanation
Indices: 62347389--62347585 Score: 277
Period size: 78 Copynumber: 2.6 Consensus size: 76
62347379 ATATTCGATG
* *
62347389 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGTCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGCAGGCTT
62347454 CGTGCTGGTAT
66 CGTGCTGGTAT
* * * **
62347465 TATATCCGGGCTTAAAGACCCGCAGGCTTCATGTTGGTAAAATATCCGAGTTAAATCCCGCAGGC
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGCAGGC
62347530 TTCGTGCTGGTAT
64 TTCGTGCTGGTAT
* * * *
62347543 TATATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATAT
62347586 TTGGGCCTTC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
76 30 0.29
77 9 0.09
78 64 0.62
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGCAGGCTT
CGTGCTGGTAT
Found at i:62347707 original size:43 final size:43
Alignment explanation
Indices: 62347583--62347694 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
62347573 GCTGGTATTA
*
62347583 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
62347626 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
62347669 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
62347695 GTAATGCTGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:62351155 original size:22 final size:23
Alignment explanation
Indices: 62351112--62351160 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
62351102 TAATGACATT
**
62351112 TTATTTAATTAATTATTTAACC-
1 TTATTTAATTAATTATAAAACCA
62351134 TTATTT-ATTAAATTATAAAACCA
1 TTATTTAATT-AATTATAAAACCA
62351157 TTAT
1 TTAT
62351161 ACTATGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATTTAATTAATTATAAAACCA
Found at i:62353759 original size:28 final size:28
Alignment explanation
Indices: 62353696--62353849 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
62353686 ATATTAAGTC
* *
62353696 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
62353723 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
62353751 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
62353779 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
62353807 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
62353835 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62353850 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:62356022 original size:43 final size:43
Alignment explanation
Indices: 62355913--62356172 Score: 294
Period size: 43 Copynumber: 6.0 Consensus size: 43
62355903 ATATCATACA
* * * * *
62355913 ATGCCAACGTCCCAGATGTGGT-TAGACATGTAACCTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCT-TACACGTAATCACATATCG
* * *
62355956 ATGCC-AC-TACCCTGGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAACGT-CCC-AGAC-GTGGTCTTACACGTAATCACATATCG
* * * * * *
62355999 ATGCAAACATCCTAGATGTGGTCTTACACATAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
62356042 ATGCCAACGTCCTAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
62356085 ATGCCAACGTCCCAGACGTAGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
62356128 ATCCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
62356171 AT
1 AT
62356173 ATCACATATA
Statistics
Matches: 185, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 171 0.92
44 6 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:62367311 original size:30 final size:30
Alignment explanation
Indices: 62367277--62367337 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
62367267 CCCCTTGTAC
62367277 AAACTTTGACAAAATTAC-CATTTTGCCCCT
1 AAACTTTGACAAAATTACAC-TTTTGCCCCT
* * *
62367307 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTGACAAAATTACACTTTTGCCCCT
62367337 A
1 A
62367338 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTGCCCCT
Found at i:62373487 original size:40 final size:40
Alignment explanation
Indices: 62373429--62373654 Score: 391
Period size: 40 Copynumber: 5.7 Consensus size: 40
62373419 AGCATTGGAT
62373429 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
62373469 TATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
62373509 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
62373549 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
62373589 TATATCC-GGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
62373628 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
62373655 ATGTGTTTGC
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.21
40 139 0.79
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:62378221 original size:93 final size:93
Alignment explanation
Indices: 62378106--62378276 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
62378096 GCCCCTAAGT
* *
62378106 GAACTCGGACTCAACTCAACGAGCTCGGGCGA-TCGTATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-ATTCGCATCCATAAATGAACTCGGACTCAACTCA
62378170 ACAAGTTCGGATGCCTAGTTACATCTCAC
65 ACAAGTTCGGATGCCTAGTTACATCTCAC
* * *
62378199 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
62378264 CGAGTTCGGATGC
66 CAAGTTCGGATGC
62378277 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62378265 original size:46 final size:46
Alignment explanation
Indices: 62378101--62378273 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
62378091 AACCCGCCCC
* * * *
62378101 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGATTGCATCCA
* * * *
62378147 TAAATGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---CGA-TTGCATCCA
* *
62378195 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGA-TTGCATCCA
62378240 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62378274 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.27
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGATTGCATCCA
Found at i:62380919 original size:93 final size:93
Alignment explanation
Indices: 62380760--62380930 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
62380750 GCCCCTATGT
* *
62380760 GAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCAATAAATGAACTCAGACTCAACTCAA
62380825 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
62380853 GAACTC-GAACTCAACTCAACGAGTTC-GGACATTTGCATCAATAAGTGAACTCGGACTCAACTC
1 GAACTCAG-ACTCAACTCAACGAGCTCAGG-CATTCGCATCAATAAATGAACTCAGACTCAACTC
62380916 AACGAGTTCGGATGC
64 AACGAGTTCGGATGC
62380931 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 3 0.04
93 67 0.96
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCAATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62380920 original size:46 final size:45
Alignment explanation
Indices: 62380758--62380927 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
62380748 CCGCCCCTAT
* * *
62380758 GTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAA
1 GTGAACTCAGACTCAACTCAACGAGTTC-GGACATTTGCAT-CATAA
* * * *
62380804 ATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATC-TCA
1 GTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCATAA
*
62380852 -CGAACTC-GAACTCAACTCAACGAGTTCGGACATTTGCATCAATAA
1 GTGAACTCAG-ACTCAACTCAACGAGTTCGGACATTTGCATC-ATAA
*
62380897 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCAGACTCAACTCAACGAGTTCGGA
62380928 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 4 0.04
46 54 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
GTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCATAA
Found at i:62384611 original size:15 final size:15
Alignment explanation
Indices: 62384591--62384633 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62384581 TATCGTATCT
62384591 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
62384606 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
* *
62384620 TTGGATTCTTTATT
1 TGGGTTTCTTTATT
62384634 TGATTTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.09, C:0.14, G:0.19, T:0.58
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:62388812 original size:28 final size:28
Alignment explanation
Indices: 62388728--62388822 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
62388718 GCATGATTAT
* * * *
62388728 AATGTGATTTGGGCTAGATGGGCCATATA
1 AATGTGAATTGGGC-CGATAGGCCATATG
* *
62388757 AATGAG-ATTGGGCCTAATAGGCCATATG
1 AATGTGAATTGGGCC-GATAGGCCATATG
62388785 AATGTGAATTGGGCCGATAGGCCATATG
1 AATGTGAATTGGGCCGATAGGCCATATG
*
62388813 AACGTGAATT
1 AATGTGAATT
62388823 TGCCGGATGG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 42 0.76
29 13 0.24
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (28 bp):
AATGTGAATTGGGCCGATAGGCCATATG
Found at i:62394687 original size:27 final size:27
Alignment explanation
Indices: 62394649--62394762 Score: 151
Period size: 27 Copynumber: 4.2 Consensus size: 27
62394639 GAGGAAGCGT
62394649 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
62394676 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
62394704 TCTGATGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
62394731 TCTGGCGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
62394757 TCTGGT
1 TCTGGT
62394763 AGCAATGCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:62394755 original size:54 final size:55
Alignment explanation
Indices: 62394648--62394757 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
62394638 GGAGGAAGCG
* * *
62394648 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGATGGCTCTGCCACAAATATCTGATCTGGCGACTCTGCCACAAATATCTGT
*
62394703 TTCTGATGGCTCTGCCAC-AATATCTGTATCTGGCGACTCTGTCAC-AATATCTGT
1 TTCTGATGGCTCTGCCACAAATATCTG-ATCTGGCGACTCTGCCACAAATATCTGT
62394757 T
1 T
62394758 CTGGTAGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (55 bp):
TTCTGATGGCTCTGCCACAAATATCTGATCTGGCGACTCTGCCACAAATATCTGT
Found at i:62418070 original size:40 final size:41
Alignment explanation
Indices: 62418009--62418096 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 41
62417999 GTTTAATAAG
* *
62418009 AAATAAAGTCCATCAAATCAATAATTAACTAAGATGAGTTT
1 AAATAAAGTCCAGCAAATCAATAATTAACTAACATGAGTTT
* * *
62418050 -AATAAAGTCTAGCAACTCAATTATTAACTAACATGAGTTT
1 AAATAAAGTCCAGCAAATCAATAATTAACTAACATGAGTTT
62418090 AAATAAA
1 AAATAAA
62418097 TTAGAGTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 35 0.85
41 6 0.15
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (41 bp):
AAATAAAGTCCAGCAAATCAATAATTAACTAACATGAGTTT
Found at i:62420172 original size:27 final size:28
Alignment explanation
Indices: 62420138--62420288 Score: 150
Period size: 27 Copynumber: 5.5 Consensus size: 28
62420128 TAAATTGTAC
* *
62420138 AGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACTATGAT
* *
62420166 -GCACTAAGTGTGCGAATTGACCATG-C
1 AGCACTAAGTGTGCGAATTGACTATGAT
* *
62420192 GGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGA-ATTGACTATGAT
* * *
62420220 AGCACTAAGTGTGCGATTTGATTA-CAT
1 AGCACTAAGTGTGCGAATTGACTATGAT
* *
62420247 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGAATTGACTATGAT
*
62420274 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62420289 GACTCAATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
27 84 0.79
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTGACTATGAT
Found at i:62420230 original size:55 final size:53
Alignment explanation
Indices: 62420138--62420288 Score: 162
Period size: 55 Copynumber: 2.8 Consensus size: 53
62420128 TAAATTGTAC
** *
62420138 AGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGA-CCAT
1 AGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGATACAT
* * *
62420190 GCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACAT
1 --AGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGA-TACAT
* * *
62420247 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
62420289 GACTCAATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
54 37 0.45
55 42 0.51
56 1 0.01
57 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGATACAT
Found at i:62420279 original size:82 final size:82
Alignment explanation
Indices: 62420138--62420288 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
62420128 TAAATTGTAC
* * *
62420138 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATATCATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
62420203 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
62420220 AGCACTAAGTGTGCGATTTGATTA-CATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATATCAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
62420284 GTGCG
65 GTGCG
62420289 GACTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 2 0.04
82 55 0.96
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATATCATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:62424261 original size:24 final size:23
Alignment explanation
Indices: 62424206--62424262 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
62424196 ACTCCCTCAC
* *
62424206 TTTTTCCTTTCTTTTTTTCAATT
1 TTTTTTCTTTCTCTTTTTCAATT
* *
62424229 TTCTATTCTTTCTCTTTTTCCATCT
1 TT-TTTTCTTTCTCTTTTTCAAT-T
62424254 TTTTTTCTT
1 TTTTTTCTT
62424263 GTACTATTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.07
24 22 0.81
25 3 0.11
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTCTTTCTCTTTTTCAATT
Found at i:62426434 original size:24 final size:25
Alignment explanation
Indices: 62426402--62426453 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
62426392 GTAAAATAGG
62426402 TAAAATAAATAAAGGATAATTT-GC
1 TAAAATAAATAAAGGATAATTTGGC
62426426 TAAAATAAATAAAGGATAATTTGGC
1 TAAAATAAATAAAGGATAATTTGGC
62426451 TAA
1 TAA
62426454 GACTGAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (25 bp):
TAAAATAAATAAAGGATAATTTGGC
Found at i:62427128 original size:24 final size:23
Alignment explanation
Indices: 62427065--62427135 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
62427055 TTAAAGGATA
*
62427065 TATAATGCTCTCCTTTAAATGATG
1 TATAATGCTCT-CTTTAAGTGATG
62427089 TA-ACA-GCTC-CTTTAAGTGATG
1 TATA-ATGCTCTCTTTAAGTGATG
*
62427110 TATAATGCTCTTCTTTAAGTAATG
1 TATAATGCTC-TCTTTAAGTGATG
62427134 TA
1 TA
62427136 ACAGCCACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
21 14 0.35
22 5 0.12
23 5 0.12
24 16 0.40
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (23 bp):
TATAATGCTCTCTTTAAGTGATG
Found at i:62443570 original size:40 final size:41
Alignment explanation
Indices: 62443509--62443596 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 41
62443499 AATTTAATAA
62443509 AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
1 AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
* * * *
62443550 -AATAAAGTCCAGCAACTCAATTATTAACTAAGATTAGTTT
1 AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
62443590 AAATAAA
1 AAATAAA
62443597 TTAAAGTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 36 0.86
41 6 0.14
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.28
Consensus pattern (41 bp):
AAATAAAGTCCAACAAATCAATAATTAACTAAGATGAGTTT
Found at i:62447588 original size:22 final size:23
Alignment explanation
Indices: 62447554--62447622 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 23
62447544 GCCTTAGGCA
*
62447554 AATGCA-GTTGGCACACAGCCAT
1 AATGCAGGTTGGCACAAAGCCAT
*
62447576 AAT-CAGGTTGGCACAGAGCCAT
1 AATGCAGGTTGGCACAAAGCCAT
*
62447598 -ATGTAGGTTGGCACAAAGCCAT
1 AATGCAGGTTGGCACAAAGCCAT
62447620 AAT
1 AAT
62447623 TAGAATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.10
22 35 0.85
23 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (23 bp):
AATGCAGGTTGGCACAAAGCCAT
Found at i:62448415 original size:39 final size:39
Alignment explanation
Indices: 62448397--62448519 Score: 228
Period size: 39 Copynumber: 3.2 Consensus size: 39
62448387 AGCCCGGATG
62448397 TAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
1 TAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
62448436 TAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
1 TAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
* *
62448475 TAATTCCAGCATATAGCCTGTGGACCTTAAGTCCGGATA
1 TAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
62448514 TAATTC
1 TAATTC
62448520 ATCACTGAGT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
TAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
Found at i:62448445 original size:78 final size:78
Alignment explanation
Indices: 62448372--62448519 Score: 217
Period size: 78 Copynumber: 1.9 Consensus size: 78
62448362 ACCAGCTCGA
* **
62448372 AGCCTACGGGA-CTTTAGCCCGGATGTAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
1 AGCCTAC-GGACCTTAAGCCCGGACATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACA
62448436 TAATTCCAGCATAT
65 TAATTCCAGCATAT
* * * *
62448450 AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCATATAGCCTGTGGACCTTAAGTCCGGATAT
1 AGCCTACGGACCTTAAGCCCGGACATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACAT
62448515 AATTC
66 AATTC
62448520 ATCACTGAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 3 0.05
78 59 0.95
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (78 bp):
AGCCTACGGACCTTAAGCCCGGACATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGGACAT
AATTCCAGCATAT
Found at i:62450882 original size:41 final size:41
Alignment explanation
Indices: 62450820--62450942 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 41
62450810 TAAAAGCGAC
* * *
62450820 CGGTAGATCCACGGTCGTCAAGCAACCATGTGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGTGATCCTCAAT
* *
62450861 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGTGATCCTCAAT
*
62450902 CGGTGGATCCAC-AGTTGTCAAGCAACCATGTGATCCTCAAT
1 CGGTGGATCCACGA-TCGTCAAGCAACCATGTGATCCTCAAT
62450943 TTCTTCCTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 72 0.99
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGTGATCCTCAAT
Found at i:62451244 original size:27 final size:27
Alignment explanation
Indices: 62451221--62451381 Score: 96
Period size: 27 Copynumber: 5.9 Consensus size: 27
62451211 GGTATTTTAC
* *
62451221 AAGCCAATGGTATTTTTGTAATTTTTGA
1 AAGCCAAGGGTATTTCTGTAA-TTTTGA
*
62451249 AAGTCAAGGGTATTTCTGTAATTTTGTA
1 AAGCCAAGGGTATTTCTGTAATTTTG-A
** * * *
62451277 AA-TTAGGGGTATTTCTATAATTTTCCA
1 AAGCCAAGGGTATTTCTGTAATTTT-GA
** * *
62451304 AA-TTAAGGGTATTTCGGTAATTTTCCA
1 AAGCCAAGGGTATTTCTGTAATTTT-GA
* *
62451331 AA-TCAGGGGTATTTCTGTAATTTT-A
1 AAGCCAAGGGTATTTCTGTAATTTTGA
* * *
62451356 CAAGTCGAGGGTATTTCAGTAATTTT
1 -AAGCCAAGGGTATTTCTGTAATTTT
62451382 ACAAGTTGAA
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 2 0.02
27 89 0.79
28 21 0.19
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
AAGCCAAGGGTATTTCTGTAATTTTGA
Found at i:62451382 original size:27 final size:27
Alignment explanation
Indices: 62451255--62451568 Score: 208
Period size: 27 Copynumber: 11.6 Consensus size: 27
62451245 TTGAAAGTCA
* ** *
62451255 AGGGTATTTCTGTAATTTTGTAAAT-T
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
62451281 AGGGGTATTTCTA-TAATTTTCCAAATTA
1 A-GGGTATTTC-AGTAATTTTACAAATCG
* *
62451309 AGGGTATTTCGGTAATTTTCCAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
62451335 AGGGGTATTTCTGTAATTTTACAAGTCG
1 A-GGGTATTTCAGTAATTTTACAAATCG
* *
62451363 AGGGTATTTCAGTAATTTTACAAGTTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
62451390 AAGGTATTTCAGTAATTTTATAGGTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
62451417 AGGATATTTCGGTAATTGCACAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
*
62451443 AGGAGTATTTCAGTAATTTCACAAATC-
1 AGG-GTATTTCAGTAATTTTACAAATCG
** *
62451470 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCAGTAATTTTACAAATCG
** * * *
62451497 AGGGGTATTTTGGAAATTTTACGAACCG
1 A-GGGTATTTCAGTAATTTTACAAATCG
** * * *
62451525 AGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
62451552 ATGGTATTTCAGTAATT
1 AGGGTATTTCAGTAATT
62451569 CTTCCCTACA
Statistics
Matches: 239, Mismatches: 39, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
26 6 0.03
27 227 0.95
28 6 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:62451515 original size:108 final size:108
Alignment explanation
Indices: 62451313--62451517 Score: 245
Period size: 108 Copynumber: 1.9 Consensus size: 108
62451303 AAATTAAGGG
* * * * *
62451313 TATTTCGGTAATTTTCCAAATCAGGGGTATTTCTGTAATTTTACAAGTCGAGGGTATTTCAGTAA
1 TATTTCGGTAATTTGCCAAATCAGGAGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAGTAA
* * *
62451378 TTTTACAAGTTGAAGGTATTTCAGTAATTTTATAGGTCGAGGA
66 TTTTACAACTAGAAGGTATTTCAGAAATTTTATAGGTCGAGGA
**
62451421 TATTTCGGTAA-TTGCACAAATCAGGAGTATTTCAGTAATTTCACAAATC-AGGGGTATTTTGGT
1 TATTTCGGTAATTTGC-CAAATCAGGAGTATTTCAGTAATTTCACAAATCGA-GGGTATTTCAGT
* **
62451484 AATTTTACAAACTAG-GGGTATTTTGGAAATTTTA
64 AATTTTAC-AACTAGAAGGTATTTCAGAAATTTTA
62451518 CGAACCGAGG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
107 4 0.05
108 73 0.90
109 4 0.05
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (108 bp):
TATTTCGGTAATTTGCCAAATCAGGAGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAGTAA
TTTTACAACTAGAAGGTATTTCAGAAATTTTATAGGTCGAGGA
Found at i:62455576 original size:18 final size:18
Alignment explanation
Indices: 62455551--62455600 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
62455541 TAACAGTCGA
62455551 AGTAATCAGTGCAGTAACC
1 AGTAATCAGTGCAGTAA-C
* * *
62455570 A-TGATCAATGTAGTAAC
1 AGTAATCAGTGCAGTAAC
62455587 AGTAATCAGTGCAG
1 AGTAATCAGTGCAG
62455601 AATGCAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
17 2 0.08
18 21 0.88
19 1 0.04
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (18 bp):
AGTAATCAGTGCAGTAAC
Found at i:62456111 original size:27 final size:27
Alignment explanation
Indices: 62455995--62456114 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
62455985 AGAGCAAATT
* *
62455995 AGTCATTTTACCTTACTAA-GGTATTAC
1 AGTCATTTTACCCTA-TAAGGGTATTTC
* * *
62456022 AGTCATTTGACCCTACAGGGGTATTTC
1 AGTCATTTTACCCTATAAGGGTATTTC
* * **
62456049 AGTCATTCTATCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATAAGGGTATTTC
*
62456076 GGTCATTTTACCCTATAAGGGTATTTC
1 AGTCATTTTACCCTATAAGGGTATTTC
*
62456103 CGTCATTTTACC
1 AGTCATTTTACC
62456115 ACATGAGGGC
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 75 0.99
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (27 bp):
AGTCATTTTACCCTATAAGGGTATTTC
Found at i:62456137 original size:27 final size:27
Alignment explanation
Indices: 62456103--62456261 Score: 131
Period size: 27 Copynumber: 5.8 Consensus size: 27
62456093 AGGGTATTTC
*
62456103 CGTCATTTTACCACATGAGGGCAAAAT
1 CGTCATTTTATCACATGAGGGCAAAAT
* * ** * *
62456130 CATAATTTTATCGTA-GAATGGTAAAAT
1 CGTCATTTTATCACATG-AGGGCAAAAT
*
62456157 CGTCATTTTATCACATGAGGGAAAAAT
1 CGTCATTTTATCACATGAGGGCAAAAT
* *
62456184 TGTCATTTTATCACATAAGGGCAAAAT
1 CGTCATTTTATCACATGAGGGCAAAAT
* * *
62456211 CGACATTTTATCACTACATAAGGGAAAAAT
1 CGTCATTTTAT--C-ACATGAGGGCAAAAT
* * *
62456241 TGACATTTTATCACTTGAGGG
1 CGTCATTTTATCACATGAGGG
62456262 TTCAGGTAAG
Statistics
Matches: 105, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.01
27 77 0.73
28 2 0.02
29 1 0.01
30 24 0.23
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (27 bp):
CGTCATTTTATCACATGAGGGCAAAAT
Done.