Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 157 of 235
Found at i:52911790 original size:24 final size:24
Alignment explanation
Indices: 52911758--52911806 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52911748 TTCCTCTCAT
52911758 AAAGTTATGATTCAATCCATTTGC
1 AAAGTTATGATTCAATCCATTTGC
52911782 AAAGTTATGATTCAATCCATTTGC
1 AAAGTTATGATTCAATCCATTTGC
52911806 A
1 A
52911807 TACTCATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (24 bp):
AAAGTTATGATTCAATCCATTTGC
Found at i:52916981 original size:14 final size:14
Alignment explanation
Indices: 52916962--52917006 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
52916952 TAAATACCTG
52916962 AAAAATAAATCACA
1 AAAAATAAATCACA
* *
52916976 AAAAATAAATAATA
1 AAAAATAAATCACA
*
52916990 AATAATAAATCAGCA
1 AAAAATAAATCA-CA
52917005 AA
1 AA
52917007 TTTAAGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.71, C:0.09, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAAATAAATCACA
Found at i:52920231 original size:51 final size:50
Alignment explanation
Indices: 52920149--52920286 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
52920139 CCGTCTCTTC
* * * * * *
52920149 CACATAGTGGCCTACACTTAGTACCACACATGTGATCGAAGCTATCGGGTA
1 CACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAA-CCATCGGGTA
* * * *
52920200 CGCATAGTAGCCTGCACTTAGTACTATACATGCGACCTAACCATCTGGTA
1 CACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAACCATCGGGTA
* * *
52920250 CACGTAGTAACCTGCACTTAGTACTACACACGCGACC
1 CACATAGTAGCCTGCACTTAGTACTACACATGCGACC
52920287 AAAAAACCGT
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 40 0.56
51 32 0.44
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAACCATCGGGTA
Found at i:52923583 original size:42 final size:42
Alignment explanation
Indices: 52923526--52923691 Score: 156
Period size: 42 Copynumber: 3.9 Consensus size: 42
52923516 TAGGGTTATG
* * *
52923526 TGTGATTTCGTGTAAGACCATATTTGGGATATGCCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
*
52923568 TGTGATTTCATGTAAGACCATGTCTGGGATATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * ** * * *
52923610 CGGGACATCGTATAAGACCATAGT-TGGGCTATCGGCATCGATATA
1 TGTGATTTCATGTAAGACCATA-TCTGGGATAT-GGCATCG--ATA
* *
52923655 TGTGA-TCCTATGTAAGACCATATCTAGGATATGGCAT
1 TGTGATTTC-ATGTAAGACCATATCTGGGATATGGCAT
52923692 TGGCATCTTA
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
42 60 0.61
43 8 0.08
44 7 0.07
45 23 0.23
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:52923669 original size:87 final size:84
Alignment explanation
Indices: 52923533--52923691 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 84
52923523 ATGTGTGATT
* * * * *
52923533 TCGTGTAAGACCATATTTGGGATATGCCATCGATATGTGATTTCATGTAAGACCATGTCTGGGAT
1 TCGTATAAGACCATAGTTGGGATATGCCATCGATATGTGATCTCATGTAAGACCATATCTAGGAT
52923598 ATGGCATCGATACGGGACA
66 ATGGCATCGATACGGGACA
* *
52923617 TCGTATAAGACCATAGTTGGGCTATCGGCATCGATATATGTGATC-CTATGTAAGACCATATCTA
1 TCGTATAAGACCATAGTTGGGATAT-GCCATCG--ATATGTGATCTC-ATGTAAGACCATATCTA
52923681 GGATATGGCAT
62 GGATATGGCAT
52923692 TGGCATCTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 22 0.34
85 6 0.09
86 1 0.02
87 35 0.55
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (84 bp):
TCGTATAAGACCATAGTTGGGATATGCCATCGATATGTGATCTCATGTAAGACCATATCTAGGAT
ATGGCATCGATACGGGACA
Found at i:52929136 original size:43 final size:43
Alignment explanation
Indices: 52928995--52929138 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
52928985 TACCGAGATT
*
52928995 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATA-TG
* * * * *
52929038 TAATTACGTGTAAGACCATGTCTCGGATATTGGCATC-ATTATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGA-TATG
* * * *
52929081 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATG
**
52929124 TGACAACATGTAAGA
1 TGATTACATGTAAGA
52929139 ACATACTAGG
Statistics
Matches: 81, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
43 78 0.96
44 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATG
Found at i:52933717 original size:15 final size:15
Alignment explanation
Indices: 52933697--52933729 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
52933687 TCGGATGAAT
*
52933697 AAAAATGGTACATCC
1 AAAAATGGAACATCC
52933712 AAAAATGGAACATCC
1 AAAAATGGAACATCC
52933727 AAA
1 AAA
52933730 CATCAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.15
Consensus pattern (15 bp):
AAAAATGGAACATCC
Found at i:52933812 original size:16 final size:16
Alignment explanation
Indices: 52933791--52933823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52933781 TATAATTTAA
52933791 TCAATTAATTCAATAG
1 TCAATTAATTCAATAG
*
52933807 TCAATTAATTTAATAG
1 TCAATTAATTCAATAG
52933823 T
1 T
52933824 TAAAATGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (16 bp):
TCAATTAATTCAATAG
Found at i:52934884 original size:16 final size:16
Alignment explanation
Indices: 52934859--52934893 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
52934849 CAAAAGATAG
*
52934859 ATATAAGCATTCATAC
1 ATATAAGCATTCACAC
*
52934875 ATATAGGCATTCACAC
1 ATATAAGCATTCACAC
52934891 ATA
1 ATA
52934894 AAATGAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATAAGCATTCACAC
Found at i:52937378 original size:43 final size:44
Alignment explanation
Indices: 52937320--52937406 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
52937310 ATGCAAAGAA
* **
52937320 TTGGGGAAATGTGTTTTGGGGTTTT-GTTAAAATGGCTAAGTGT
1 TTGGGAAAATGTGTTTTGGGGTTTTGGGGAAAATGGCTAAGTGT
* *
52937363 TTGGGAAAATTTGTTTTGGGGTTTTGGGGGAAATGGCTAAGTGT
1 TTGGGAAAATGTGTTTTGGGGTTTTGGGGAAAATGGCTAAGTGT
52937407 CAGGCATGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 23 0.61
44 15 0.39
ACGTcount: A:0.21, C:0.02, G:0.37, T:0.40
Consensus pattern (44 bp):
TTGGGAAAATGTGTTTTGGGGTTTTGGGGAAAATGGCTAAGTGT
Found at i:52937755 original size:15 final size:16
Alignment explanation
Indices: 52937731--52937772 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
52937721 CTAATTAATC
52937731 TAAACCCTAAACCT-T
1 TAAACCCTAAACCTCT
*
52937746 TAACCCCT-AA-CTCT
1 TAAACCCTAAACCTCT
52937760 TAAACCCTAAACC
1 TAAACCCTAAACC
52937773 CATAACACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 9 0.41
16 1 0.05
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAACCCTAAACCTCT
Found at i:52937763 original size:22 final size:21
Alignment explanation
Indices: 52937737--52937791 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
52937727 AATCTAAACC
* * *
52937737 CTAAACCTTTAACCCCTAACT
1 CTAAACCTTAAACCCATAACA
*
52937758 CTTAAACCCTAAACCCATAACA
1 C-TAAACCTTAAACCCATAACA
52937780 CTAAACCTTAAA
1 CTAAACCTTAAA
52937792 ATATTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAAACCTTAAACCCATAACA
Found at i:52937832 original size:7 final size:7
Alignment explanation
Indices: 52937822--52938031 Score: 89
Period size: 7 Copynumber: 29.0 Consensus size: 7
52937812 AAACCATAAC
*
52937822 CCCCTAT
1 CCCCTAA
52937829 CCCCTTAA
1 CCCC-TAA
52937837 CCCCTAA
1 CCCCTAA
*
52937844 CCCTTTAA
1 CCC-CTAA
52937852 CCCCTAA
1 CCCCTAA
52937859 CCCCTAA
1 CCCCTAA
52937866 CCCCTAA
1 CCCCTAA
*
52937873 CCACTAA
1 CCCCTAA
52937880 CCCCTAA
1 CCCCTAA
* *
52937887 ACCTTAA
1 CCCCTAA
* *
52937894 ACTCTAA
1 CCCCTAA
* *
52937901 CTCTTAA
1 CCCCTAA
*
52937908 ACCCTAAA
1 CCCCT-AA
*
52937916 CCCATAA
1 CCCCTAA
*
52937923 -CACTAA
1 CCCCTAA
* *
52937929 ACCTTAAA
1 CCCCT-AA
****
52937937 ATATTAA
1 CCCCTAA
* *
52937944 CTCATAA
1 CCCCTAA
* **
52937951 ACTATAAA
1 CCCCT-AA
* *
52937959 ACCATAA
1 CCCCTAA
*
52937966 CCCCCTAT
1 -CCCCTAA
52937974 CCCCTTAA
1 CCCC-TAA
52937982 CCCCTAA
1 CCCCTAA
*
52937989 CCCTTTAA
1 CCC-CTAA
52937997 CCCCTAA
1 CCCCTAA
52938004 CCCCTAA
1 CCCCTAA
52938011 CCCCTAA
1 CCCCTAA
*
52938018 CCACTAA
1 CCCCTAA
52938025 CCCCTAA
1 CCCCTAA
52938032 ACCTTAAACT
Statistics
Matches: 155, Mismatches: 39, Indels: 18
0.73 0.18 0.08
Matches are distributed among these distances:
6 4 0.03
7 107 0.69
8 44 0.28
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (7 bp):
CCCCTAA
Found at i:52937916 original size:145 final size:145
Alignment explanation
Indices: 52937730--52938103 Score: 703
Period size: 145 Copynumber: 2.6 Consensus size: 145
52937720 ACTAATTAAT
* * *
52937730 CTAAACCCTAAACCTTTAACCCCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATA
1 CTAACCCCTAAACC-TTAAACTCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATA
52937795 TTAACTCATAAACTATAAAACCATAACCCCCTATCCCCTTAACCCCTAACCCTTTAACCCCTAAC
65 TTAACTCATAAACTATAAAACCATAACCCCCTATCCCCTTAACCCCTAACCCTTTAACCCCTAAC
52937860 CCCTAACCCCTAACCA
130 CCCTAACCCCTAACCA
52937876 CTAACCCCTAAACCTTAAACTCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATAT
1 CTAACCCCTAAACCTTAAACTCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATAT
52937941 TAACTCATAAACTATAAAACCATAACCCCCTATCCCCTTAACCCCTAACCCTTTAACCCCTAACC
66 TAACTCATAAACTATAAAACCATAACCCCCTATCCCCTTAACCCCTAACCCTTTAACCCCTAACC
52938006 CCTAACCCCTAACCA
131 CCTAACCCCTAACCA
52938021 CTAACCCCTAAACCTTAAACTCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATAT
1 CTAACCCCTAAACCTTAAACTCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATAT
*
52938086 TAACTCATAAACCATAAA
66 TAACTCATAAACTATAAA
52938104 CCCTAAACTA
Statistics
Matches: 224, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
145 211 0.94
146 13 0.06
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (145 bp):
CTAACCCCTAAACCTTAAACTCTAACTCTTAAACCCTAAACCCATAACACTAAACCTTAAAATAT
TAACTCATAAACTATAAAACCATAACCCCCTATCCCCTTAACCCCTAACCCTTTAACCCCTAACC
CCTAACCCCTAACCA
Found at i:52938120 original size:14 final size:14
Alignment explanation
Indices: 52938093--52938130 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
52938083 TATTAACTCA
*
52938093 TAAACCATAAACCC
1 TAAACTATAAACCC
*
52938107 TAAACTATATACCC
1 TAAACTATAAACCC
52938121 TAAACTATAA
1 TAAACTATAA
52938131 TGATAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACTATAAACCC
Found at i:52938279 original size:29 final size:30
Alignment explanation
Indices: 52938246--52938313 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
52938236 CTTTAAAATT
52938246 ATTTTAAATAATAGTATTTTTAT-T-TTTTC
1 ATTTTAAATAATA-TATTTTTATATGTTTTC
* * *
52938275 ATTTTTAA-CATATATTTTTATATGTTTTT
1 ATTTTAAATAATATATTTTTATATGTTTTC
52938304 ATTTTCAAAT
1 ATTTT-AAAT
52938314 TTTTTCTACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
27 9 0.29
28 4 0.13
29 16 0.52
30 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (30 bp):
ATTTTAAATAATATATTTTTATATGTTTTC
Found at i:52938501 original size:40 final size:39
Alignment explanation
Indices: 52938457--52938728 Score: 287
Period size: 40 Copynumber: 6.8 Consensus size: 39
52938447 GATCGAGCAT
* *
52938457 TAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTA
1 TAGCGGCG-TTTTTTAAAAACGCCGCTAATGCTCGATCTA
* *
52938497 TAGCGGCGTTTTTTAAAAAACGCCGCT-ATAGATCGAGC-A
1 TAGCGGCGTTTTTT-AAAAACGCCGCTAAT-GCTCGATCTA
* *
52938536 TTAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTA
1 -TAGCGGCG-TTTTTTAAAAACGCCGCTAATGCTCGATCTA
52938577 TAGCGGCGTTTTTTAAAAAACGCCGCTAATGCTCGATCTA
1 TAGCGGCGTTTTTT-AAAAACGCCGCTAATGCTCGATCTA
* * * * *
52938617 TAGCGGCGTTTTTAAAAAAGCGCTGTTAATTCTTGATCTA
1 TAGCGGCGTTTTTTAAAAA-CGCCGCTAATGCTCGATCTA
* * *
52938657 TAGTGGTGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTA
1 TAGCGGCGTTTTTTAAAAA-CGCCGCTAATGCTCGATCTA
* * * *
52938697 TAGTGGCATTTTTTTAAAAACACAGCTAATGC
1 TAGCGGC-GTTTTTTAAAAACGCCGCTAATGC
52938729 CACTAAGGCT
Statistics
Matches: 197, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
39 20 0.10
40 158 0.80
41 19 0.10
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (39 bp):
TAGCGGCGTTTTTTAAAAACGCCGCTAATGCTCGATCTA
Found at i:52938621 original size:80 final size:80
Alignment explanation
Indices: 52938457--52938728 Score: 336
Period size: 80 Copynumber: 3.4 Consensus size: 80
52938447 GATCGAGCAT
52938457 TAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAACGCCG
1 TAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAACGCCG
* *
52938522 CT-ATAGATCGAGC-A
66 CTAAT-GCTCGATCTA
52938536 TTAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAACGCC
1 -TAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAACGCC
52938601 GCTAATGCTCGATCTA
65 GCTAATGCTCGATCTA
* * * * * * * * *
52938617 TAGCGGCG-TTTTTAAAAAAGCGCTGTTAATTCTTGATCTATAGTGGTG-TTTTTAAAAAAGCGC
1 TAGCGACGCTTTTTTAAAAA-CACCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAA-CGC
52938680 CGCTAATGCTCGATCTA
64 CGCTAATGCTCGATCTA
* * ** *
52938697 TAGTGGCATTTTTTTAAAAACACAGCTAATGC
1 TAGCGACGCTTTTTTAAAAACACCGCTAATGC
52938729 CACTAAGGCT
Statistics
Matches: 169, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
79 21 0.12
80 135 0.80
81 13 0.08
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (80 bp):
TAGCGACGCTTTTTTAAAAACACCGCTAATGCTCGATCTATAGCGGCGTTTTTTAAAAAACGCCG
CTAATGCTCGATCTA
Found at i:52946026 original size:24 final size:25
Alignment explanation
Indices: 52945999--52946047 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
52945989 CATTAATACA
* *
52945999 CCAACTTACAACTAT-CCAAAATAG
1 CCAACTCACAACCATACCAAAATAG
*
52946023 CCAACTCATAACCATACCAAAATAG
1 CCAACTCACAACCATACCAAAATAG
52946048 GCCAGCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (25 bp):
CCAACTCACAACCATACCAAAATAG
Found at i:52946520 original size:24 final size:24
Alignment explanation
Indices: 52946447--52946512 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
52946437 AAGTCTGTCT
* *
52946447 GGAGAAGATTTAGGAGCTCATAAG
1 GGAGAGGATTTAGGAGCTAATAAG
**
52946471 GGAGAGGATTTAGGAGCTAACCAG
1 GGAGAGGATTTAGGAGCTAATAAG
52946495 GGAGAGGATTTAGGAGCT
1 GGAGAGGATTTAGGAGCT
52946513 GATTAGGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTAATAAG
Found at i:52947992 original size:27 final size:26
Alignment explanation
Indices: 52947954--52948056 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 26
52947944 AAGCGTCCTA
*
52947954 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
52947981 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
52948008 GTGGTTCTGCCACGATTATCTGTGTCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* *
52948036 GTGACTCTGTCACATTATCTG
1 GTGGCTCTGCCACATTATCTG
52948057 TTTTGGCAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
26 2 0.03
27 48 0.73
28 16 0.24
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:52954313 original size:24 final size:24
Alignment explanation
Indices: 52954280--52954353 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
52954270 AAGTCTGTCT
*
52954280 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
52954304 GGAGAGGATTTAGGAGCTAATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
52954328 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
52954352 GG
1 GG
52954354 TGAACTGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:52955888 original size:54 final size:54
Alignment explanation
Indices: 52955784--52955893 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
52955774 AGGAAGCGTC
*
52955784 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * * * *
52955838 CTGGTGGTTCTGCCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
52955892 CT
1 CT
52955894 CGCAGCCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 32 0.67
55 16 0.33
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:52955890 original size:27 final size:27
Alignment explanation
Indices: 52955784--52955890 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
52955774 AGGAAGCGTC
*
52955784 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
52955811 CTAGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
52955838 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
52955866 TTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
52955891 TCTCGCAGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.03
27 51 0.75
28 15 0.22
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:52959648 original size:6 final size:6
Alignment explanation
Indices: 52959637--52959661 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52959627 TTATGAATTA
52959637 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
52959662 ATTTTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:52959649 original size:22 final size:20
Alignment explanation
Indices: 52959623--52959677 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 20
52959613 TTAAACTTTA
52959623 TATTTTATGAATTATTTATTTT
1 TATTTTATGAATTATTTA--TT
52959645 TATTTT-T--ATT-TTTATT
1 TATTTTATGAATTATTTATT
*
52959661 TATTTTATGATTTATTT
1 TATTTTATGAATTATTT
52959678 CAATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
16 8 0.29
17 1 0.04
18 4 0.14
19 5 0.18
20 3 0.11
21 1 0.04
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
TATTTTATGAATTATTTATT
Found at i:52959673 original size:12 final size:11
Alignment explanation
Indices: 52959635--52959677 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
52959625 TTTTATGAAT
52959635 TATTTATTTTTA
1 TATTTA-TTTTA
*
52959647 TTTTTATTTT-
1 TATTTATTTTA
52959657 TATTTATTTTA
1 TATTTATTTTA
52959668 TGATTTATTT
1 T-ATTTATTT
52959678 CAATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 5 0.19
12 13 0.48
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:52959683 original size:22 final size:21
Alignment explanation
Indices: 52959636--52959687 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
52959626 TTTATGAATT
* **
52959636 ATTTATTTTTATTTTTATTTTT
1 ATTTA-TTTTATATTTATTTCA
52959658 ATTTATTTTATGATTTATTTCA
1 ATTTATTTTAT-ATTTATTTCA
52959680 ATTT-TTTT
1 ATTTATTTT
52959688 GCATGTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
ATTTATTTTATATTTATTTCA
Found at i:52961975 original size:42 final size:42
Alignment explanation
Indices: 52961918--52962082 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
52961908 TAGGCTTATG
52961918 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
52961960 TGTGATTTCATGTAAGACCATGTCTAGGACATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * ** * *
52962002 CGGGACATCGTGTAAGA-CATAGT-TGGGCTATCGGCATCGATATA
1 TGTGATTTCATGTAAGACCATA-TCTGGGATAT-GGCATCG--ATA
**
52962046 TGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCAT
52962083 TGGCATCTTA
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 8 0.08
42 59 0.60
44 20 0.20
45 11 0.11
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:52963378 original size:20 final size:20
Alignment explanation
Indices: 52963353--52963404 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
52963343 TGGGCTGAGG
52963353 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
52963373 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
52963393 ACACGGGCGTGT
1 ACACGGGCGTGT
52963405 GTGTGACCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:52968730 original size:30 final size:30
Alignment explanation
Indices: 52968694--52968767 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
52968684 TAAGTTTGTA
52968694 TGAAACCAAGATTTTGTTTCGTAATTTTCT
1 TGAAACCAAGATTTTGTTTCGTAATTTTCT
52968724 TGAAACCAAGATTTTGTTTCGTAATTTTCT
1 TGAAACCAAGATTTTGTTTCGTAATTTTCT
*
52968754 TGAAACCAGGATTT
1 TGAAACCAAGATTT
52968768 AGAATCTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (30 bp):
TGAAACCAAGATTTTGTTTCGTAATTTTCT
Found at i:52971076 original size:46 final size:46
Alignment explanation
Indices: 52971009--52971098 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
52970999 TTAGATTAAT
*
52971009 GATTAATTTTCTTTTGACTTTTCAATAACTTAGTTGTTTTTCCTTA
1 GATTAATTTTATTTTGACTTTTCAATAACTTAGTTGTTTTTCCTTA
52971055 GATTAATTTTATTTTGACTTTTCAATAACTTAGTTGTTTTTCCT
1 GATTAATTTTATTTTGACTTTTCAATAACTTAGTTGTTTTTCCT
52971099 CTTGGAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.57
Consensus pattern (46 bp):
GATTAATTTTATTTTGACTTTTCAATAACTTAGTTGTTTTTCCTTA
Found at i:52976744 original size:18 final size:19
Alignment explanation
Indices: 52976713--52976759 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
52976703 ATGCCAAAAT
52976713 GAAAAATGATTTTTAAGTG
1 GAAAAATGATTTTTAAGTG
52976732 GAAAAATGATTTTTAAGTG
1 GAAAAATGATTTTTAAGTG
*
52976751 AAAAAATGA
1 GAAAAATGA
52976760 ATTTGGCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (19 bp):
GAAAAATGATTTTTAAGTG
Found at i:52977305 original size:13 final size:13
Alignment explanation
Indices: 52977287--52977329 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
52977277 TTTAATAATA
52977287 AAATAAAGAAATG
1 AAATAAAGAAATG
52977300 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
52977312 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
52977326 AAAT
1 AAAT
52977330 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:52977317 original size:17 final size:18
Alignment explanation
Indices: 52977283--52977329 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
52977273 ATAGTTTAAT
* *
52977283 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
52977301 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
52977318 AATAAAAGAAAT
1 AATAAAAGAAAT
52977330 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:52977321 original size:9 final size:9
Alignment explanation
Indices: 52977295--52977329 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
52977285 TAAAATAAAG
52977295 AAATGAAAT
1 AAATGAAAT
52977304 AAA-GAAAT
1 AAATGAAAT
52977312 AAATGAAAT
1 AAATGAAAT
*
52977321 AAAAGAAAT
1 AAATGAAAT
52977330 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:52978715 original size:5 final size:5
Alignment explanation
Indices: 52978700--52978746 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
52978690 AGTGGAAAAG
* * *
52978700 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
52978747 ATGATTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 35 0.90
6 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (5 bp):
TGAAT
Found at i:52979224 original size:45 final size:45
Alignment explanation
Indices: 52979166--52979394 Score: 305
Period size: 45 Copynumber: 5.1 Consensus size: 45
52979156 ACTACTACTA
* *
52979166 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
* *
52979211 TTACCGATTCGGCACTTTGTGTATCGAGTATTGTTACTGTTACCG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
* * * *
52979256 TTATCGATTCGGTACTGTGTGTGTCGAATATTGTTACTGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
* *
52979301 TTACCGATTCAGCACTGTGTGTGTCGAATATTGTTACTGTTACCG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
* * * * * * *
52979346 TTACCAATTCAGCACTTTGTGTGTTGAATACTATTATTGTTACTG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
52979391 TTAC
1 TTAC
52979395 TATTCCGGAT
Statistics
Matches: 163, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 163 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (45 bp):
TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
Found at i:52979593 original size:18 final size:18
Alignment explanation
Indices: 52979562--52979764 Score: 141
Period size: 18 Copynumber: 11.3 Consensus size: 18
52979552 AAAGGTATAA
* *
52979562 AATAACTGATTATTACTG
1 AATAATTGACTATTACTG
*
52979580 AATAATTGACTATTACCG
1 AATAATTGACTATTACTG
*
52979598 AATAATTGACTGTTACT-
1 AATAATTGACTATTACTG
*
52979615 AGAT-ATTAGACTGTTACTG
1 A-ATAATT-GACTATTACTG
* *
52979634 AATAACTGAATATTACTG
1 AATAATTGACTATTACTG
52979652 AATAATTGA-TCATTACTG
1 AATAATTGACT-ATTACTG
* * * *
52979670 AATAACTGATTGTCACTG
1 AATAATTGACTATTACTG
**
52979688 AATGAA-TGACTGCTACTG
1 AAT-AATTGACTATTACTG
*
52979706 AATAACTT-AATAGTTACTG
1 AATAA-TTGACTA-TTACTG
*
52979725 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTATTACTG
*
52979742 AATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
*
52979760 GATAA
1 AATAA
52979765 CCGATCAATT
Statistics
Matches: 150, Mismatches: 21, Indels: 28
0.75 0.11 0.14
Matches are distributed among these distances:
17 20 0.13
18 114 0.76
19 16 0.11
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
AATAATTGACTATTACTG
Found at i:52979699 original size:72 final size:72
Alignment explanation
Indices: 52979562--52979764 Score: 218
Period size: 72 Copynumber: 2.8 Consensus size: 72
52979552 AAAGGTATAA
* * * * *
52979562 AATAACTGATTATTACTGAATAATTGA-CTATTACCGAATAATTGACTGTTACTAGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTAGATAATAGAC
*
52979626 TGTTACTG
65 TGCTACTG
*
52979634 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACT-GAATGAAT-GA
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTAG-AT-AATAGA
52979697 CTGCTACTG
64 CTGCTACTG
* * * * *
52979706 AATAACTTAATAGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAATA-TTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTAGATAA
52979765 CCGATCAATT
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
71 3 0.03
72 93 0.82
73 17 0.15
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTAGATAATAGACT
GCTACTG
Found at i:52979765 original size:54 final size:54
Alignment explanation
Indices: 52979562--52979857 Score: 176
Period size: 54 Copynumber: 5.4 Consensus size: 54
52979552 AAAGGTATAA
* *
52979562 AATAACTGATTATTACTGAATAATTGACTATTACCGAATAATTGACT-GTTACT-
1 AATAACTGATTATTACTGAATAATTGACTATTACTGAATAATT-AATAGTTACTG
* * * * * *
52979615 AGAT-ATTAGACTGTTACTGAATAACTGAATATTACTGAATAATTGATCA-TTACTG
1 A-ATAACT-GATTATTACTGAATAATTGACTATTACTGAATAATTAAT-AGTTACTG
* * **
52979670 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTGAATAACTTAATAGTTACTG
1 AATAACTGATTATTACTGAAT-AATTGACTATTACTGAATAA-TTAATAGTTACTG
* * * *
52979725 AATATCTGATT-TTACTGAATAATTGACTGTTACTGGATAACCGATCAATTAATCGATACTG
1 AATAACTGATTATTACTGAATAATTGACTATTACT-G---A---AT-AATTAATAGTTACTG
* * * * * * *
52979786 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACT-GTTACTG
1 AATAACTGATTATTACTGAATAATTGACTATTACTGAATAA-TTAATAGTTACTG
* *
52979840 AATAAATAATTATT-CTGA
1 AATAACTGATTATTACTGA
52979858 GTGTTAATGA
Statistics
Matches: 191, Mismatches: 32, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
53 9 0.05
54 104 0.54
55 31 0.16
58 2 0.01
61 23 0.12
62 22 0.12
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (54 bp):
AATAACTGATTATTACTGAATAATTGACTATTACTGAATAATTAATAGTTACTG
Found at i:52979824 original size:18 final size:18
Alignment explanation
Indices: 52979803--52979844 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
52979793 GGTTATTATT
* *
52979803 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
52979821 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
52979839 GAATAA
1 GAATAA
52979845 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:52979842 original size:36 final size:36
Alignment explanation
Indices: 52979562--52979844 Score: 180
Period size: 36 Copynumber: 7.6 Consensus size: 36
52979552 AAAGGTATAA
* * * * *
52979562 AATAACTGATTATTACTGAATAATTGACTATTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* *
52979598 AATAATTGACTGTTACT-AGAT-ATTAGACTGTTACTG
1 AATAACTGACTGTTACTGA-ATAATT-GATTGTTACTG
* * **
52979634 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
* * * *
52979670 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGACTGTTACTGAAT-AATTGATTGTTACTG
* *
52979706 AATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGATTGTTACTG
* * * *
52979742 AATAATTGACTGTTACTGGATAACCGATCAATTAATCGATACTG
1 AATAACTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
** * * *
52979786 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGATTGTTACTG
52979822 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
52979845 ATAATTATTC
Statistics
Matches: 187, Mismatches: 42, Indels: 36
0.71 0.16 0.14
Matches are distributed among these distances:
35 11 0.06
36 128 0.68
37 21 0.11
39 1 0.01
40 1 0.01
42 2 0.01
43 4 0.02
44 19 0.10
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:52981624 original size:45 final size:45
Alignment explanation
Indices: 52981558--52981647 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
52981548 TGAAATCAAG
52981558 AAAGTCTTTTTTGAGTCATTCCAGTGGCCAATATAGCTTTTCGAT
1 AAAGTCTTTTTTGAGTCATTCCAGTGGCCAATATAGCTTTTCGAT
* * *
52981603 AAAGTCTTTTTTGAGTTATTCCAGTGGCTAATGTAGCTTTTCGAT
1 AAAGTCTTTTTTGAGTCATTCCAGTGGCCAATATAGCTTTTCGAT
52981648 TTCAACCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (45 bp):
AAAGTCTTTTTTGAGTCATTCCAGTGGCCAATATAGCTTTTCGAT
Found at i:52982439 original size:15 final size:15
Alignment explanation
Indices: 52982421--52982453 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
52982411 GTATTAAAAT
52982421 TTTA-ATTTTTAATAA
1 TTTATATTTTT-ATAA
52982436 TTTATATTTTTATAA
1 TTTATATTTTTATAA
52982451 TTT
1 TTT
52982454 TTAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATATTTTTATAA
Found at i:52982485 original size:29 final size:30
Alignment explanation
Indices: 52982443--52982507 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
52982433 TAATTTATAT
52982443 TTTTATAATTTTTAA-ATAATTAAATTAAAA
1 TTTTATAATTTTTAAGA-AATTAAATTAAAA
* *
52982473 TTTTATAA-TTTTAAGAGATTAAATTACAA
1 TTTTATAATTTTTAAGAAATTAAATTAAAA
52982502 TTTTAT
1 TTTTAT
52982508 TTTTATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (30 bp):
TTTTATAATTTTTAAGAAATTAAATTAAAA
Found at i:52989639 original size:12 final size:13
Alignment explanation
Indices: 52989622--52989658 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
52989612 GAACCGGACA
52989622 CGAACCGAA-CTC
1 CGAACCGAAGCTC
52989634 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
52989646 CGAACCGTAGCTC
1 CGAACCGAAGCTC
52989659 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:52991884 original size:22 final size:22
Alignment explanation
Indices: 52991858--52991903 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
52991848 ATTAAATTCA
*
52991858 TATAAAGAGTTTAAGAAAAATT
1 TATAAAGAGTGTAAGAAAAATT
52991880 TATAAAGAGTGTAAGAAAAATT
1 TATAAAGAGTGTAAGAAAAATT
52991902 TA
1 TA
52991904 AAGTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.30
Consensus pattern (22 bp):
TATAAAGAGTGTAAGAAAAATT
Found at i:52994487 original size:25 final size:26
Alignment explanation
Indices: 52994450--52994501 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
52994440 TTTATTTTTA
*
52994450 TTTTAAAAATATTTAAAATAT-TATT
1 TTTTAAAAATATTGAAAATATATATT
* * *
52994475 TTTTAATATTATTGAACATATATATT
1 TTTTAAAAATATTGAAAATATATATT
52994501 T
1 T
52994502 AATTATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTAAAAATATTGAAAATATATATT
Found at i:52994550 original size:22 final size:22
Alignment explanation
Indices: 52994525--52994568 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
52994515 TAGTCATATA
52994525 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * * *
52994547 ATAATTTTTTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
52994569 TATTTAATAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:52994604 original size:13 final size:14
Alignment explanation
Indices: 52994588--52994629 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
52994578 CTTCAATTTT
52994588 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
52994601 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
52994616 ATTTTAAATAATAT
1 ATTTT-AATAATAT
52994630 TATTGACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:52994614 original size:16 final size:16
Alignment explanation
Indices: 52994592--52994628 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
52994582 AATTTTATTT
52994592 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
52994609 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
52994624 TAATA
1 TAATA
52994629 TTATTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:52994681 original size:15 final size:15
Alignment explanation
Indices: 52994661--52994717 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
52994651 ATTCAATATT
52994661 AATATTTTAATAATA
1 AATATTTTAATAATA
*
52994676 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
52994695 AATATATTAATAATA
1 AATATTTTAATAATA
*
52994710 AATGTTTT
1 AATATTTT
52994718 GTAATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:53000056 original size:30 final size:30
Alignment explanation
Indices: 53000020--53000117 Score: 144
Period size: 30 Copynumber: 3.3 Consensus size: 30
53000010 AGGTACAAGT
*
53000020 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
53000050 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
* *
53000080 GGCGGTGGAACAAGTGTGGCTAGTGGAGTTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAG-TA
53000111 -GTGGTGG
1 GGTGGTGG
53000118 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
30 60 0.98
31 1 0.02
ACGTcount: A:0.19, C:0.07, G:0.49, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:53000901 original size:87 final size:87
Alignment explanation
Indices: 53000754--53000959 Score: 236
Period size: 87 Copynumber: 2.4 Consensus size: 87
53000744 TCCTGAGCTT
* * *
53000754 AACTCATTTCTCGCAATATGAATTGACTTTTTAAAACTAAACATTAAAAACATAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
53000819 GCTCAGCAAGTGAGCCAAGGCTC
65 CCTCAGCAAGTGACCCAAGGCTC
* * **
53000842 AACTCACTTCTTGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
53000905 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCAAGTGACCCAAGGCTC
* *
53000929 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
53000960 GCAAAGCATA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 71 0.71
88 23 0.23
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCAAGTGACCCAAGGCTC
Found at i:53001183 original size:13 final size:14
Alignment explanation
Indices: 53001151--53001183 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
53001141 TGATTTTTTG
53001151 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
53001165 GAAAAACAGAATTT
1 GAAAAACAAAATTT
53001179 GAAAA
1 GAAAA
53001184 TACCTCAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:53001236 original size:91 final size:90
Alignment explanation
Indices: 53000998--53001315 Score: 330
Period size: 91 Copynumber: 3.6 Consensus size: 90
53000988 AATAAAAATC
* *
53000998 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
53001063 TTGACAAACATAAATTG--AAA-AGA
65 TTGAAAAACAGAAATTGAAAAACAGA
* ** * * *
53001086 AATTGAAAATATCTCAGCGTGTCCT-AAAGCTGAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGATCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
53001150 GGAAAAACA-AAATTTGAAAAACAGA
66 TGAAAAACAGAAA-TTGAAAAACAGA
* * *
53001175 ATTTGAAAATACCTCAACGTGTGAGTCAAGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGTGA-TCAAGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTT
* *
53001239 TTTGAAACACAGAAATTGAAGAACAGA
64 TTTGAAAAACAGAAATTGAAAAACAGA
* * * ** * *
53001266 AATGGAAAACACCTCA--GTGT-CTTGAGGTTCAACTCGCCTCTCGCAATATG
1 AATTGAAAATACCTCAGCGTGTGATCAAGGCTCAACTCACCTCTCGCAATATG
53001316 CTCGTAATAT
Statistics
Matches: 191, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
85 3 0.02
86 46 0.24
87 23 0.12
88 24 0.13
89 26 0.14
90 1 0.01
91 64 0.34
92 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (90 bp):
AATTGAAAATACCTCAGCGTGTGATCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAACAGAAATTGAAAAACAGA
Found at i:53001799 original size:148 final size:149
Alignment explanation
Indices: 53001376--53002413 Score: 1240
Period size: 148 Copynumber: 6.9 Consensus size: 149
53001366 AATAAAAATC
** *
53001376 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * * *
53001439 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
64 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
53001502 GTTGATTTTTTTTGAAAAACAGA
129 GTTGA--TTTTTTGAAAAACAAA
* * * * *
53001525 AATTGAAAATACCTCAACGTTTCTTGAGGTTCAACTCACCTCTCGCAACATGAGCTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
53001590 -AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATGAGT
66 GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
53001654 TGA-GTTTTGACAAACAAA
131 TGATTTTTTGAAAAACAAA
* *
53001672 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTT
1 AATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
53001736 TGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTTGCAATATGAG
65 TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
53001801 CTGATTTTTTTAAAAGACAGA
130 TTGATTTTTTGAAAA-ACAAA
* * *
53001822 AATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * * * * *
53001885 GACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGT
66 GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
53001948 TGATTTTTTTGAAAAACAGA
131 TGA-TTTTTTGAAAAACAAA
* * *
53001968 AATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
53002033 GAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
53002098 TGA-TTTTTGACAAACAAA
131 TGATTTTTTGAAAAACAAA
* ** * * *
53002116 AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTCT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
53002181 GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATGAGT
66 GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
53002246 TGA-GTTTTGACAAACAAA
131 TGATTTTTTGAAAAACAAA
* * *
53002264 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGCAATATGAGTTGATTTTTT
1 AATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
53002328 TAGAAACATAAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
65 T-G-------------AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
53002393 TCTCGCAATATGAGTTGATTT
116 TCTCGCAATATGAGTTGATTT
53002414 GAAAAGCAGA
Statistics
Matches: 770, Mismatches: 89, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
146 99 0.13
147 110 0.14
148 336 0.44
149 34 0.04
150 124 0.16
151 4 0.01
162 62 0.08
163 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (149 bp):
AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACAAA
Found at i:53001885 original size:444 final size:442
Alignment explanation
Indices: 53001401--53002326 Score: 1586
Period size: 444 Copynumber: 2.1 Consensus size: 442
53001391 GGCGTGTGAT
53001401 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
53001466 AGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGA
66 AGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTGA
*
53001531 AAATACCTCAACGTTTCTTGAGGTTCAACTCACCTCTCGCAACATGAGCTGATTTTTTT-AAAGA
130 AAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAACATGAGCTGATTTTTTTGAAAGA
* * *
53001595 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATGAGTTGAGTT
195 CAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTT
*
53001660 TTGACAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
260 TTGACAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCACAATATGA
* * *
53001725 GTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
325 GTTGATTTTTCTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* * * *
53001790 TGCAATATGAGCTGATTTTTTTAAAAGACAGAAATTGAAAA-TACTTCAACGTGTC
390 TGCAATATGAGCTGA-GTTTTGAAAA-ACAAAAATT-AAAATTACCTCAACGTGTC
* *
53001845 TTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
53001910 AGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
66 AGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
*
53001975 AATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGAC
131 AATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAACATGAGCTGATTTTTTTGAAAGAC
*
53002040 AGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
196 AGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTT
* *
53002105 TGACAAACAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTATCACAATATGAG
261 TGACAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCACAATATGAG
53002170 TTGATTTTTCTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTT
326 TTGATTTTTCTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTT
* * * *
53002235 GTAATATGAGTTGAGTTTTGACAAACAAAAATTAAAATTACCTCAGCGTGTC
391 GCAATATGAGCTGAGTTTTGAAAAACAAAAATTAAAATTACCTCAACGTGTC
* *
53002287 CTGAGGCTCAACTCACTTATCGCAATATGAGTTGATTTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
53002327 TTAGAAACAT
Statistics
Matches: 454, Mismatches: 26, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
441 4 0.01
442 56 0.12
443 87 0.19
444 307 0.68
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (442 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
AGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
AATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAACATGAGCTGATTTTTTTGAAAGAC
AGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTT
TGACAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCACAATATGAG
TTGATTTTTCTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTT
GCAATATGAGCTGAGTTTTGAAAAACAAAAATTAAAATTACCTCAACGTGTC
Found at i:53002022 original size:221 final size:221
Alignment explanation
Indices: 53001376--53002326 Score: 1496
Period size: 221 Copynumber: 4.3 Consensus size: 221
53001366 AATAAAAATC
** *
53001376 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
53001441 GACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTG
64 GACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTG
*
53001506 ATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTTTCTTGAGGTTCAACTCACCTCTCGC
129 A-TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGC
*
53001571 AACATGAGCTGATTTTTTT-AAAGACAGA
193 AATATGAGCTGATTTTTTTAAAAGACAGA
* * *
53001599 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTAATATGAGTTGAGTTTTGA
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
53001664 CAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTG
66 CAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTG
* *
53001729 ATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTTGCA
129 ATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCA
53001794 ATATGAGCTGATTTTTTTAAAAGACAGA
194 ATATGAGCTGATTTTTTTAAAAGACAGA
* *
53001822 AATTGAAAATACTTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
53001887 CAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
66 CAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
53001952 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAAT
131 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAAT
*
53002017 ATGAGCTGATTTTTTTGAAAGACAGA
196 ATGAGCTGATTTTTTTAAAAGACAGA
*
53002043 AATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
53002108 CAAACAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTATCACAATATGAGTTG
66 CAAACAAAAATTGAAATTACCTCA--GCGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTG
* * * *
53002173 ATTTTTCTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGTA
129 ATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCA
* * * * *
53002238 ATATGAGTTGA-GTTTTGACAA-ACAAA
194 ATATGAGCTGATTTTTTTAAAAGACAGA
* * * *
53002264 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGCAATATGAGTTGATTTTT
1 AATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
53002327 TTAGAAACAT
Statistics
Matches: 679, Mismatches: 43, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
220 4 0.01
221 332 0.49
222 85 0.13
223 258 0.38
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (221 bp):
AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
CAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAAT
ATGAGCTGATTTTTTTAAAAGACAGA
Found at i:53002456 original size:99 final size:98
Alignment explanation
Indices: 53002344--53002702 Score: 427
Period size: 100 Copynumber: 3.7 Consensus size: 98
53002334 CATAAATTAA
* *
53002344 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
53002409 GATTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
66 GATTTGAAAA-CAGAATTTGAAAAGCAAAAATTG
53002443 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
53002508 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GA--TTTG-AAAACAGAATTTGAAAAGCAAAAATTG
* * * * *
53002543 AAAAACAGAAATTAAAAATACCTCGGTGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
53002608 GA-TT----------TTTGAAAAGCATAAATTG
66 GATTTGAAAACAGAATTTGAAAAGCAAAAATTG
* * * *
53002630 AAAAAACGGAAATTGAAAATACCTCAGCGTGTAACCTGAGGCCCAATTCACCTCTCGCAATATGA
1 -AAAAACAGAAATTGAAAATACCTCAGCGTG--CCCTGAGGCTCAACTCACCTCTCGCAATATGA
53002695 GTTGATTT
63 GTTGATTT
53002703 TTTTGAAAGA
Statistics
Matches: 230, Mismatches: 22, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
86 2 0.01
87 13 0.06
88 26 0.11
90 32 0.14
91 2 0.01
97 2 0.01
99 65 0.28
100 73 0.32
101 11 0.05
102 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (98 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTGAAAACAGAATTTGAAAAGCAAAAATTG
Found at i:53002551 original size:14 final size:13
Alignment explanation
Indices: 53002516--53002560 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
53002506 TTGATTTTTG
53002516 AAAAACAGAAATT
1 AAAAACAGAAATT
*
53002529 AAAAGCAGAAATT
1 AAAAACAGAAATT
53002542 GAAAAACAGAAATT
1 -AAAAACAGAAATT
53002556 AAAAA
1 AAAAA
53002561 TACCTCGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:53002581 original size:100 final size:101
Alignment explanation
Indices: 53002344--53002648 Score: 445
Period size: 100 Copynumber: 3.0 Consensus size: 101
53002334 CATAAATTAA
* *
53002344 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
53002409 GA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
53002443 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
53002508 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
* * * * *
53002543 AAAAACAGAAATTAAAAATACCTCGGTGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
53002608 GATTTTTGAAAAGCATAAATTGAAAAAACGGAAATTG
66 GATTTTTGAAAAGCAGAAATTG-AAAAGCAGAAATTG
53002645 AAAA
1 AAAA
53002649 TACCTCAGCG
Statistics
Matches: 186, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
99 65 0.35
100 90 0.48
101 15 0.08
102 16 0.09
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTG
Found at i:53002693 original size:90 final size:87
Alignment explanation
Indices: 53002529--53002704 Score: 244
Period size: 90 Copynumber: 2.0 Consensus size: 87
53002519 AACAGAAATT
** * *
53002529 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGTGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGTGTAACCCGAGGCCCAACTCACCTC
53002594 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
53002616 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTAACCTGAGGCCCAATTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GTGTAACCCGAGGCCCAACTCAC
53002681 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
53002705 TTGAAAGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.29
89 1 0.01
90 41 0.53
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGTGTAACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:53014250 original size:39 final size:39
Alignment explanation
Indices: 53014196--53014271 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
53014186 GGTATTTTTT
53014196 TGACAAGGATCTCTGCAAGAGGATTTGATTTGGGTTGGA
1 TGACAAGGATCTCTGCAAGAGGATTTGATTTGGGTTGGA
*
53014235 TGACAAGGATCTCTGCAAGAGGTTTTGATTTGGGTTG
1 TGACAAGGATCTCTGCAAGAGGATTTGATTTGGGTTG
53014272 AATCAGGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.24, C:0.11, G:0.33, T:0.33
Consensus pattern (39 bp):
TGACAAGGATCTCTGCAAGAGGATTTGATTTGGGTTGGA
Found at i:53025418 original size:30 final size:30
Alignment explanation
Indices: 53025384--53025441 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
53025374 GCAACAAATT
53025384 TCACTCTGGAAAGTACCGAATGAAGAGCGG
1 TCACTCTGGAAAGTACCGAATGAAGAGCGG
* *
53025414 TCACTCTGGAGAGTGCCGAATGAAGAGC
1 TCACTCTGGAAAGTACCGAATGAAGAGC
53025442 AGTGCATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (30 bp):
TCACTCTGGAAAGTACCGAATGAAGAGCGG
Found at i:53034943 original size:46 final size:46
Alignment explanation
Indices: 53034873--53035040 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
53034863 TTATTTGTGT
* *
53034873 GCCAGTGTAAGA-CATGTTTAGGACATGCATCGTCCCCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTAGGACATGCATCG-CCACGAGATGTAA
* * *
53034919 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACAAGATGT--
1 GCCAGTGTAAGACCATGTCTAGGACATGCATC-GCCACGAGATGTAA
* * *
53034963 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGA
1 GCCAGTGTAAGACCATGTCTAGGACAT-GCATCGCCACG-AGATGT-A-A
* *
53035013 GCTAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGACCATGTCTAGGACATG
53035041 GCGTCGGCCT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 47 0.47
47 1 0.01
49 1 0.01
50 24 0.24
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTCTAGGACATGCATCGCCACGAGATGTAA
Found at i:53035041 original size:50 final size:48
Alignment explanation
Indices: 53034921--53035140 Score: 192
Period size: 50 Copynumber: 4.6 Consensus size: 48
53034911 AGATGTAAGC
*
53034921 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-A---GATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATATGTGA-GAGT
*
53034965 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATATGTGAGAGT
* * * *
53035014 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGAT-TTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATGTGAGAGT
* * * *
53035064 CAATATAAGAACATGTCTGGGACATGGCATC-G-ACTTGATG-GATGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATGTGA-GAGT
53035111 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
53035141 TGGAATTATA
Statistics
Matches: 143, Mismatches: 19, Indels: 25
0.76 0.10 0.13
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 11 0.08
47 32 0.22
48 2 0.01
49 33 0.23
50 35 0.24
51 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGTGAGAGT
Found at i:53035083 original size:49 final size:47
Alignment explanation
Indices: 53034926--53035140 Score: 147
Period size: 49 Copynumber: 4.5 Consensus size: 47
53034916 TAAGCCAGTG
* * * * *
53034926 TAAGA-CATGTCTGGGACAT-GCATCGGCTAC-A-AGATGTGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACT-CGATGGATGAGTCAATA
* * * * *
53034970 TAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGA-GAG-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACTCG---ATG-GATGAGTC-AATA
* * *
53035020 TAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGAT-AGTCAATA
1 TAAGACCATGTCTGGGACATGGCATC-GACTCGA--TGGATGAGTCAATA
* * * *
53035069 TAAGAACATGTCTGGGACATGGCATCGACTTGATGGATGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACTCGATGGATGAGTCAATA
53035116 TAAGACCATGTCTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
53035141 TGGAATTATA
Statistics
Matches: 137, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
44 5 0.04
45 14 0.10
46 12 0.09
47 30 0.22
48 6 0.04
49 32 0.23
50 32 0.23
51 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACTCGATGGATGAGTCAATA
Found at i:53054024 original size:39 final size:40
Alignment explanation
Indices: 53053929--53054190 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
53053919 TTGAATGATG
*
53053929 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
53053967 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
53054008 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
53054047 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
53054086 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
53054125 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
53054164 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
53054191 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:53060213 original size:29 final size:28
Alignment explanation
Indices: 53060177--53060254 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
53060167 TCATGAGATT
53060177 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
53060207 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
53060234 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
53060255 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:53060472 original size:174 final size:174
Alignment explanation
Indices: 53060207--53060534 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
53060197 AAATTGTACA
*
53060207 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
53060272 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
53060337 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
53060381 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
53060446 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
53060511 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
53060535 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:53074162 original size:40 final size:40
Alignment explanation
Indices: 53074068--53074292 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
53074058 TATTCGAATG
* * *
53074068 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
53074109 ATAAT-CGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 AT-ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
53074149 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
53074189 ATATCCGGGCTAAAACCCCAGGGCATTTGTGCTAGCGACA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
53074229 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
53074269 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
53074293 CTTGCGCAAG
Statistics
Matches: 153, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.02
40 122 0.80
41 26 0.17
42 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:53078827 original size:7 final size:7
Alignment explanation
Indices: 53078811--53078839 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
53078801 TTTAAGAAAG
53078811 TTTA-TT
1 TTTATTT
53078817 TTTATTT
1 TTTATTT
53078824 TTTATTT
1 TTTATTT
53078831 TTTATTT
1 TTTATTT
53078838 TT
1 TT
53078840 ATTATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTATTT
Found at i:53078850 original size:13 final size:13
Alignment explanation
Indices: 53078811--53078850 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
53078801 TTTAAGAAAG
*
53078811 TTTATTTTTATTT
1 TTTATTTTTAATT
*
53078824 TTTATTTTTTATT
1 TTTATTTTTAATT
*
53078837 TTTATTATTAATT
1 TTTATTTTTAATT
53078850 T
1 T
53078851 CGGTTATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTAATT
Found at i:53078850 original size:20 final size:20
Alignment explanation
Indices: 53078811--53078850 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53078801 TTTAAGAAAG
* *
53078811 TTTATTTTTATTTTTTATTT
1 TTTATTTTTATTATTAATTT
53078831 TTTATTTTTATTATTAATTT
1 TTTATTTTTATTATTAATTT
53078851 CGGTTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTATTTTTATTATTAATTT
Found at i:53079670 original size:22 final size:22
Alignment explanation
Indices: 53079639--53079682 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
53079629 CATTTGATTT
*
53079639 GATATGTCAAAATGATTAAGGC
1 GATATATCAAAATGATTAAGGC
53079661 GATATATCAAAATGATTAAGGC
1 GATATATCAAAATGATTAAGGC
53079683 ACTTAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.27
Consensus pattern (22 bp):
GATATATCAAAATGATTAAGGC
Found at i:53088380 original size:14 final size:15
Alignment explanation
Indices: 53088361--53088391 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
53088351 ATTTGACTAG
53088361 TTCTTAATT-ATGTT
1 TTCTTAATTCATGTT
53088375 TTCTTAATTCATGTT
1 TTCTTAATTCATGTT
53088390 TT
1 TT
53088392 GATATTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTCTTAATTCATGTT
Found at i:53090222 original size:34 final size:34
Alignment explanation
Indices: 53090137--53090232 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
53090127 TTTTAGTTAG
*
53090137 GGGCCTTAGCCCCTCTTTCAGTAACAGTAGCAGTCT
1 GGGCCTTAG-CCC-ATTTCAGTAACAGTAGCAGTCT
* *** * * *
53090173 GGGCCTAAATTCATTTCAGTAATAGTGGTAGTCT
1 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
53090207 GGGCCTTAGCCCATTTCAGT-ACAGTA
1 GGGCCTTAGCCCATTTCAGTAACAGTA
53090233 TGCACATAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
33 4 0.09
34 34 0.74
35 1 0.02
36 7 0.15
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
Found at i:53097944 original size:34 final size:34
Alignment explanation
Indices: 53097879--53097958 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
53097869 TATCCCCTTC
* *
53097879 TTCAGTAACAGTAGCAGACTGGGCCTGAGCCCGT
1 TTCAGTAACAGTAGCAGACTGGGACTGAGCCCAT
* * ** *
53097913 TTCATTAACAGTGGCAGTTTGGGACTTAGCCCAT
1 TTCAGTAACAGTAGCAGACTGGGACTGAGCCCAT
53097947 TTCAGT-ACAGTA
1 TTCAGTAACAGTA
53097959 TGCACACAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
TTCAGTAACAGTAGCAGACTGGGACTGAGCCCAT
Found at i:53098376 original size:20 final size:20
Alignment explanation
Indices: 53098351--53098396 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
53098341 TCAGTGATAA
53098351 TGGGCCTACAACCCATATTC
1 TGGGCCTACAACCCATATTC
*
53098371 TGGGCCTATAACCCATATTC
1 TGGGCCTACAACCCATATTC
53098391 TGGGCC
1 TGGGCC
53098397 CTTGTGGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.26
Consensus pattern (20 bp):
TGGGCCTACAACCCATATTC
Found at i:53105036 original size:46 final size:46
Alignment explanation
Indices: 53104969--53105091 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
53104959 ATCTCGTAGT
*
53104969 CGATGCATGTCCCAAACATGTCTTACACTGA-CTTA-TGTCTTGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGAGC--ACTGTCTCGAGGC
* *
53105015 CGATGCATGTCTCAAACATGTCTTACACT-AGCACTGTCTCGATGC
1 CGATGCATGTCCCAAACATGTCTTACACTGAGCACTGTCTCGAGGC
*
53105060 CGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTG
53105092 GCTCTCATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.01
45 15 0.22
46 41 0.61
47 10 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGAGCACTGTCTCGAGGC
Found at i:53113225 original size:232 final size:232
Alignment explanation
Indices: 53112871--53113337 Score: 934
Period size: 232 Copynumber: 2.0 Consensus size: 232
53112861 TCTTGGTTCC
53112871 TCTGGGTTTGACAATCTGATCTTGCTAAAGCTATACTACTGTTCGATAGGTACACTTGCCTTCAT
1 TCTGGGTTTGACAATCTGATCTTGCTAAAGCTATACTACTGTTCGATAGGTACACTTGCCTTCAT
53112936 CGTGATAATAGTTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTGTCGTGAATATCACG
66 CGTGATAATAGTTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTGTCGTGAATATCACG
53113001 AACCAAGTTTTTGGCACCGTTGCCAGGGAACTAGGATATTAGGAACAATCAATTTTTATTACTTT
131 AACCAAGTTTTTGGCACCGTTGCCAGGGAACTAGGATATTAGGAACAATCAATTTTTATTACTTT
53113066 AGCCATTTTACTTTTATTGCAATTTAAATTTTTATTT
196 AGCCATTTTACTTTTATTGCAATTTAAATTTTTATTT
53113103 TCTGGGTTTGACAATCTGATCTTGCTAAAGCTATACTACTGTTCGATAGGTACACTTGCCTTCAT
1 TCTGGGTTTGACAATCTGATCTTGCTAAAGCTATACTACTGTTCGATAGGTACACTTGCCTTCAT
53113168 CGTGATAATAGTTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTGTCGTGAATATCACG
66 CGTGATAATAGTTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTGTCGTGAATATCACG
53113233 AACCAAGTTTTTGGCACCGTTGCCAGGGAACTAGGATATTAGGAACAATCAATTTTTATTACTTT
131 AACCAAGTTTTTGGCACCGTTGCCAGGGAACTAGGATATTAGGAACAATCAATTTTTATTACTTT
53113298 AGCCATTTTACTTTTATTGCAATTTAAATTTTTATTT
196 AGCCATTTTACTTTTATTGCAATTTAAATTTTTATTT
53113335 TCT
1 TCT
53113338 TTTCTAATTC
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
232 235 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (232 bp):
TCTGGGTTTGACAATCTGATCTTGCTAAAGCTATACTACTGTTCGATAGGTACACTTGCCTTCAT
CGTGATAATAGTTAGTTTCAAGAACGAGTAATTATAAATATTTAAAACCTGTCGTGAATATCACG
AACCAAGTTTTTGGCACCGTTGCCAGGGAACTAGGATATTAGGAACAATCAATTTTTATTACTTT
AGCCATTTTACTTTTATTGCAATTTAAATTTTTATTT
Found at i:53118364 original size:27 final size:26
Alignment explanation
Indices: 53118316--53118366 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
53118306 ATGTTTAAAA
*
53118316 ACTTTTAATTTATTATTTTTATTTTC
1 ACTTTTAATTTATTATTCTTATTTTC
53118342 ACTTTTATATTTATT-TATCTTATTT
1 ACTTTTA-ATTTATTAT-TCTTATTT
53118367 AAGTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (26 bp):
ACTTTTAATTTATTATTCTTATTTTC
Found at i:53127113 original size:620 final size:619
Alignment explanation
Indices: 53125933--53127171 Score: 2262
Period size: 620 Copynumber: 2.0 Consensus size: 619
53125923 AATTAATGGC
*
53125933 ATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTT
1 ATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATATT
* *
53125998 CTTCATCAGGCGAAAATTTCAAGGTTTCTCCATAGCTAAGGTTTTTTCCAAGCTTCCAAGCTCCA
66 CTTCATCAGGCCAAAATTTCAAGGTTTCTCCATAGCTAAGGTTTGTTCCAAGCTTCCAAGCTCCA
**
53126063 TAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAGTCTTGGTAAATTGATT
131 TAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAAATTGATT
*
53126128 AAGCTTATTCTAGCAATAATTCAACCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAATTT
196 AAGCTTATTCTAGCAATAATTCAACCTAGGGTTCATATTTGAAAAAATACCCATAGGTGAAATTT
53126193 GTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTC
261 GTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTC
*
53126258 GGTTTTAAGTGAAAACGAGTAAAAGGGCTTAATCGATAAAAATACCTAATAGTCATAAGTACATG
326 GGTTTTAAGTGAAAACGAGTAAAAGGACTTAATCGATAAAAATACCTAATAGTCATAAGTACATG
*
53126323 TTAGAGTGAGAATTTGATGTTGTCATAGAAGGAAAAAATGATCAGCATGTCATAAAACATAATAA
391 TTAGAGTGAGAATTTGATGTTGTCATAGAAGGAAAAAATGATCAGCATGTCATAAAACATAAGAA
* *
53126388 AATAAGATGAAGTTTAAATTCCGAGCCTTAGGGAAAAAGTGTAAATATGTAAAATTTTAGGGGCA
456 AATAAGATGAAGATTAAATTCCGAGCCTTAGGGAAAAAGTGTAAATATGTAAAAGTTTAGGGGCA
*
53126453 AAAATGTAATTTTGCCAAAGTTTGGGTCAAGGACTGTTTTAATAAATGTGAGTATTAAATAAGCT
521 AAAATGTAATTTTGCCAAAGTTTGGGTCAAGGACTGTTTTAATAAATGCGAGTATTAAATAAGCT
53126518 AAATTTTTTTATTATAGATCAAGAAGAACAAAAT
586 AAATTTTTTTATTATAGATCAAGAAGAACAAAAT
53126552 NATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATAT
1 -ATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATAT
* *
53126617 TCTTCATTAGGCCAAAATTTCAAGGTTTCTCCATAGCTAGGGTTTGTTCCAAGCTTCCAAGCTCC
65 TCTTCATCAGGCCAAAATTTCAAGGTTTCTCCATAGCTAAGGTTTGTTCCAAGCTTCCAAGCTCC
*
53126682 ATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGAT
130 ATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAAATTGAT
53126747 TAAGCTTATTCTAGCAATAATTCAACCTAGGGTTCATATTTGAAAAAATACCCATAGGTGAAATT
195 TAAGCTTATTCTAGCAATAATTCAACCTAGGGTTCATATTTGAAAAAATACCCATAGGTGAAATT
*
53126812 TGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTTTGCTACT
260 TGTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACT
*
53126877 CGGTTTTAAGTGAAAACGAGTAAAAGGACTTAATCGGTAAAAATACCTAATAGTCATAAGTACAT
325 CGGTTTTAAGTGAAAACGAGTAAAAGGACTTAATCGATAAAAATACCTAATAGTCATAAGTACAT
*
53126942 GTTAGAGTGAGAATTTGATGTTGTCATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAAGA
390 GTTAGAGTGAGAATTTGATGTTGTCATAGAAGGAAAAAATGATCAGCATGTCATAAAACATAAGA
* * * * *
53127007 AAATAGGATGAAGATTAATTTCTGAGCCTTGGGGGAAAAGTGTAAATATGTAAAAGTTTAGGGGC
455 AAATAAGATGAAGATTAAATTCCGAGCCTTAGGGAAAAAGTGTAAATATGTAAAAGTTTAGGGGC
53127072 AAAAATGTAATTTTGCCAAAGTTTGGGTCAAGGACTGTTTTAATAAATGCGAGTATTAAATAAGC
520 AAAAATGTAATTTTGCCAAAGTTTGGGTCAAGGACTGTTTTAATAAATGCGAGTATTAAATAAGC
*
53127137 TAAATTTTTTTATTATAGGTCAAGAAGAACAAAAT
585 TAAATTTTTTTATTATAGATCAAGAAGAACAAAAT
53127172 CTGGAGCTAG
Statistics
Matches: 596, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
620 596 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (619 bp):
ATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATATT
CTTCATCAGGCCAAAATTTCAAGGTTTCTCCATAGCTAAGGTTTGTTCCAAGCTTCCAAGCTCCA
TAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAGTCCCGGTAAATTGATT
AAGCTTATTCTAGCAATAATTCAACCTAGGGTTCATATTTGAAAAAATACCCATAGGTGAAATTT
GTGTATTTTGGTGTTTTATGATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTC
GGTTTTAAGTGAAAACGAGTAAAAGGACTTAATCGATAAAAATACCTAATAGTCATAAGTACATG
TTAGAGTGAGAATTTGATGTTGTCATAGAAGGAAAAAATGATCAGCATGTCATAAAACATAAGAA
AATAAGATGAAGATTAAATTCCGAGCCTTAGGGAAAAAGTGTAAATATGTAAAAGTTTAGGGGCA
AAAATGTAATTTTGCCAAAGTTTGGGTCAAGGACTGTTTTAATAAATGCGAGTATTAAATAAGCT
AAATTTTTTTATTATAGATCAAGAAGAACAAAAT
Found at i:53131149 original size:28 final size:28
Alignment explanation
Indices: 53131060--53131138 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
53131050 TGGGAAGTAG
53131060 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCTTGATGGGCCATATGAATGTGA
* * *
53131088 TTGGGCCTAATAGGCCATATGAATGTGA
1 TTGGGCTTGATGGGCCATATGAATGTGA
*
53131116 TTGGGCTTGATGGGCCATGTGAA
1 TTGGGCTTGATGGGCCATATGAA
53131139 CGACATTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (28 bp):
TTGGGCTTGATGGGCCATATGAATGTGA
Found at i:53131498 original size:27 final size:27
Alignment explanation
Indices: 53131468--53131952 Score: 357
Period size: 27 Copynumber: 18.0 Consensus size: 27
53131458 TAATAAAGAG
*
53131468 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
53131495 AAATTACGGACAAA-ACTCTCGATTTGTA
1 AAATTAC-TA-AAATACCCTCGATTTGTA
* * *
53131523 AAATTACCAAAATACCCTC-AATTGTG
1 AAATTACTAAAATACCCTCGATTTGTA
* *
53131549 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
53131576 AAATTACTAAAATACCCCCAATTTGTG
1 AAATTACTAAAATACCCTCGATTTGTA
* *
53131603 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
* *
53131630 AAATTACTGAAATACCCTCGATTTGCA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
53131657 AAATTACTGAAATA-CCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
53131683 AAATTACCAAAATACCCTCTG-TTAGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
* *
53131710 AAATTACCAAAATACTCCT-GATTTGTG
1 AAATTACTAAAATAC-CCTCGATTTGTA
* **
53131737 AAATTACTGAAATACCCTCGACATGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
53131764 AAACTA-TCGAAATACCCTCGACTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
* * *
53131791 AAATTACAAAAATACGCTCGATTTGGA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
53131818 AAATTA-TCGAAATACTCTTGATTTAG-A
1 AAATTACT-AAAATACCCTCGATTT-GTA
* *
53131845 AAATTA-TAAAAATACCC-CTAATTTATA
1 AAATTACT-AAAATACCCTC-GATTTGTA
* * *
53131872 AAATTACAAAAATACCCTTGACTTT-CA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* * * * *
53131899 AAAATAC-AGAAATACCATTGGTTTGCA
1 AAATTACTA-AAATACCCTCGATTTGTA
* **
53131926 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
53131953 GATTTACCAA
Statistics
Matches: 367, Mismatches: 68, Indels: 46
0.76 0.14 0.10
Matches are distributed among these distances:
26 56 0.15
27 280 0.76
28 28 0.08
29 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:53131607 original size:54 final size:54
Alignment explanation
Indices: 53131468--53131861 Score: 408
Period size: 54 Copynumber: 7.3 Consensus size: 54
53131458 TAATAAAGAG
* * *
53131468 AAATTACTAAAATACCCTTGATTTGTAAAATTA-CGGACAAAACTCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATC-GA-AATACCCTCGATTTGTA
* * * *
53131523 AAATTACCAAAATACCCTC-AATTGTGAAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
53131576 AAATTACTAAAATACCCCCAATTTGTGAAATTATCGAAACACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * *
53131630 AAATTACTGAAATACCCTCGATTTGCAAAATTA-CTGAAATA-CCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
53131683 AAATTACCAAAATACCCTCTG-TTAGTAAAATTACCAAAATACTCCT-GATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTAAAATTATCGAAATAC-CCTCGATTTGTA
* ** * *
53131737 AAATTACTGAAATACCCTCGACATGTAAAACTATCGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * *
53131791 AAATTACAAAAATACGCTCGATTTGGAAAATTATCGAAATACTCTTGATTTAG-A
1 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTT-GTA
53131845 AAATTA-TAAAAATACCC
1 AAATTACT-AAAATACCC
53131862 CTAATTTATA
Statistics
Matches: 280, Mismatches: 48, Indels: 23
0.80 0.14 0.07
Matches are distributed among these distances:
53 80 0.29
54 179 0.64
55 21 0.08
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:53132266 original size:41 final size:40
Alignment explanation
Indices: 53132209--53132330 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 40
53132199 CGGATGAAGA
53132209 AATTGAGGATCGCATGGTTGCTTGACGACTGTGTATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACTGTG-ATCCACC
*
53132250 AATTGAGGATCTCATGGTTGCTTGACGATCATG-GATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGA-C-TGTGATCCACC
* * * * * *
53132291 GATTAAGGATCGCGTGGTTGCTAGAGGACCGTGGATCCAC
1 AATTGAGGATCGCATGGTTGCTTGACGACTGT-GATCCAC
53132331 TGGTGGCTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 63 0.91
42 2 0.03
43 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AATTGAGGATCGCATGGTTGCTTGACGACTGTGATCCACC
Found at i:53135667 original size:27 final size:27
Alignment explanation
Indices: 53135637--53136165 Score: 480
Period size: 27 Copynumber: 19.7 Consensus size: 27
53135627 TAATAAAGAG
*
53135637 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53135664 AAATTACGAAAACACTCC-CGATTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
*
53135691 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53135717 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
53135744 AAATTACTAAAATACCCCCGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
53135771 AAATTACCGAAACACGCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
53135798 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
53135825 AAATTACTGAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53135852 AAATTACCAAAATACCCTCGGTTAGT-
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53135878 AAATTACCAAAATACTCAT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
*
53135905 AAATTACCAAAATACCCAT-GATTTGTG
1 AAATTACCAAAATACCC-TCGATTTGTA
* ** *
53135932 AAATTACCAAAATACCCTTGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
53135959 AAATTATCGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
53135986 AAATTATCGATATACCCTAGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53136013 AAATTACCAAAATACCC-CTAATTTGGA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
53136040 AAATTATCAAAATACTCTTGATTTGGA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
53136067 AAATTACAAAAATACCCTTGACTTT-TA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
53136094 AAAATA-CAGAAATACCATTGTTTTGTA
1 AAATTACCA-AAATACCCTCGATTTGTA
* * * *
53136121 AAATTATCGAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
53136148 GATTTACCAAAACACCCT
1 AAATTACCAAAATACCCT
53136166 TGTAGGGTGA
Statistics
Matches: 415, Mismatches: 74, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
26 52 0.13
27 357 0.86
28 6 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:53135830 original size:161 final size:159
Alignment explanation
Indices: 53135637--53136083 Score: 515
Period size: 161 Copynumber: 2.8 Consensus size: 159
53135627 TAATAAAGAG
* *
53135637 AAATTACTAAAATACCCTCGATTTGTAAAATTACGAAAACACTCCCGATTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACGAAAAC-C-CTCGATTTGTAAAATTACCAAA
* * *
53135702 ATACCCTCGATTGTGAAATTACTAAAATACCCTTGATTTGTAAAATTACTAAAATACCCCCGATT
64 ATACCCTCGATTGTGAAATTACTAAAATACTCTTGATTTGTAAAATTACAAAAATACCCACGATT
* * ** *
53135767 TGTGAAATTACCGAAACACGCTCAATTTGTA
129 TGTGAAATTACCAAAACACCCTCAACCTATA
*
53135798 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTAGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTAC-GAAA-ACCCTCGATTTGTAAAATTACCAAA
* * * * * *
53135863 ATACCCTCGGTTAGT-AAATTACCAAAATACTCATGGTTTGTAAAATTACCAAAATACCCATGAT
64 ATACCCTCGATT-GTGAAATTACTAAAATACTCTTGATTTGTAAAATTACAAAAATACCCACGAT
* **
53135927 TTGTGAAATTACCAAAATACCCTTGACCTATA
128 TTGTGAAATTACCAAAACACCCTCAACCTATA
* * * * * *
53135959 AAATTATCGAAATACCCTCAACTTGTAAAATTATCGATATACCCTAGATTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTA-CGA-AAACCCTCGATTTGTAAAATTACCAAA
* *
53136024 ATACCC-CTAATT-TGGAAAATTA-TCAAAATACTCTTGATTTGGAAAATTACAAAAATACCC
64 ATACCCTC-GATTGT-G-AAATTACT-AAAATACTCTTGATTTGTAAAATTACAAAAATACCC
53136084 TTGACTTTTA
Statistics
Matches: 243, Mismatches: 33, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
159 1 0.00
160 1 0.00
161 192 0.79
162 47 0.19
163 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (159 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACGAAAACCCTCGATTTGTAAAATTACCAAAAT
ACCCTCGATTGTGAAATTACTAAAATACTCTTGATTTGTAAAATTACAAAAATACCCACGATTTG
TGAAATTACCAAAACACCCTCAACCTATA
Found at i:53136463 original size:41 final size:41
Alignment explanation
Indices: 53136406--53136528 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
53136396 AGAGGAAGAA
* *
53136406 ATTGAGGATCGCATGGTTGCTTGACGACTGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
53136447 ATTGAGAATCGCATGGTTGCTTAACGACCATGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * * *
53136488 ATTAAGGATCACATGGTTACTAGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
53136529 GTGGCTTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:53140152 original size:39 final size:39
Alignment explanation
Indices: 53140109--53140185 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
53140099 TGGGCACAAG
53140109 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGGT
1 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGGT
53140148 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGG
1 GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGG
53140186 AATTCACCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.03, G:0.36, T:0.35
Consensus pattern (39 bp):
GTCTGGTGTATATGTTAGAAATATGTTGAGTGGAGAGGT
Found at i:53141740 original size:6 final size:6
Alignment explanation
Indices: 53141710--53141778 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
53141700 AAGAAACATT
* * *
53141710 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
53141759 ATTAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
53141779 TAGGTGACAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:53141768 original size:31 final size:31
Alignment explanation
Indices: 53141731--53141789 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
53141721 AATCAAAATG
53141731 AGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
53141762 AGAATCAGAATCAGAATTAGGTGACAGA
1 AGAATCAGAATCAGAATCAGGTGACAGA
53141790 GGAGGCTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:53142076 original size:27 final size:27
Alignment explanation
Indices: 53142038--53142132 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
53142028 NNNNNNNNNN
*
53142038 ATTTCGATAATTTTACAAGTC-GAGGGT
1 ATTTCGATAATTTTACAAATCAG-GGGT
*
53142065 ATTTCGATAATTTCACAAATCAGGGGT
1 ATTTCGATAATTTTACAAATCAGGGGT
*
53142092 ATTTTGATAATTTTACAAA-CTAGGGGT
1 ATTTCGATAATTTTACAAATC-AGGGGT
* *
53142119 ATTTTGGTAATTTT
1 ATTTCGATAATTTT
53142133 TCTAATTGAG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 59 0.97
28 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTCGATAATTTTACAAATCAGGGGT
Found at i:53142145 original size:27 final size:27
Alignment explanation
Indices: 53142061--53142158 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
53142051 TACAAGTCGA
* * *
53142061 GGGTATTTCGATAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
53142088 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
53142115 GGGTATTTTGGTAATTTTTCTAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
53142141 AGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTT
53142159 GGTAAACTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 60 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:53146428 original size:27 final size:26
Alignment explanation
Indices: 53146380--53146431 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53146370 GCGAGGCTGT
*
53146380 CAGATATTGTGACGAAGTCACCAGAG
1 CAGATATTGTGACGAAGCCACCAGAG
* *
53146406 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53146432 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAG
Found at i:53146695 original size:27 final size:27
Alignment explanation
Indices: 53146675--53146818 Score: 193
Period size: 27 Copynumber: 5.3 Consensus size: 27
53146665 AGGGGTAAAA
53146675 TGGTAATTTTACAAATCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
*
53146702 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
53146729 TGGTAATTTTACAAAGT-AGGGGTATTT
1 TGGTAATTTTACAAA-TCAGGGGTATTT
* * *
53146756 TGGTAATTTTGCTAATCAAGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
* * *
53146783 TGGTAATTTTTCTAAT-TGAGGGTATTT
1 TGGTAATTTTACAAATCAG-GGGTATTT
53146810 TGGTAATTT
1 TGGTAATTT
53146819 GGTAAACTAA
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.01
27 105 0.99
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (27 bp):
TGGTAATTTTACAAATCAGGGGTATTT
Found at i:53149896 original size:28 final size:28
Alignment explanation
Indices: 53149864--53149962 Score: 180
Period size: 28 Copynumber: 3.5 Consensus size: 28
53149854 TAAGGCCTTG
53149864 TATAGAGGTTATTTGGGTTTGAAATGAT
1 TATAGAGGTTATTTGGGTTTGAAATGAT
53149892 TATAGAGGTTATTTGGGTTTGAAATGAT
1 TATAGAGGTTATTTGGGTTTGAAATGAT
53149920 TATAGAGGTTATTTGGGTTTGAAATGAT
1 TATAGAGGTTATTTGGGTTTGAAATGAT
* *
53149948 TGTAAAGGTTATTTG
1 TATAGAGGTTATTTG
53149963 TTTGAGTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (28 bp):
TATAGAGGTTATTTGGGTTTGAAATGAT
Found at i:53150821 original size:27 final size:27
Alignment explanation
Indices: 53150791--53150844 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53150781 GAAATTAAAA
*
53150791 CCTTTTTAGTGATAAAAGAAATGGAAG
1 CCTTTATAGTGATAAAAGAAATGGAAG
* **
53150818 CCTTTATGGTGATTTAAGAAATGGAAG
1 CCTTTATAGTGATAAAAGAAATGGAAG
53150845 TCGTGTGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
CCTTTATAGTGATAAAAGAAATGGAAG
Found at i:53150945 original size:173 final size:173
Alignment explanation
Indices: 53150615--53150945 Score: 450
Period size: 173 Copynumber: 1.9 Consensus size: 173
53150605 ATATGAAATG
* * *
53150615 AAACCTTTGTAGCGATATAAGAAATGGAAGCCTTTATGGTCATTTAAGAAATGGAGGCCGTTTGG
1 AAACCTTTGTAGCGATAAAAGAAATGGAAGCCTTTATGGTCATTTAAGAAATGGAAGCCGTGTGG
* * * * *
53150680 AAAATGAAGAAAGGAAGCTTTTATGGCACACTCTAAAGAGAGGCCCTTATGGCAACCTTCTGAAG
66 AAAATAAAGAAAGGAAGCCTTTATGGCACACTCTAAAGAAAGGCCCTTATGGAAACCTTCTGAAA
* *
53150745 GAAAAGCCTCTATGGTAGACCCTAAAGGTGATTTAAGAAATTA
131 GAAAAGCCTCTATAGTAGACACTAAAGGTGATTTAAGAAATTA
* * * *
53150788 AAACCTTTTTAGTGATAAAAGAAATGGAAGCCTTTATGGTGATTTAAGAAATGGAAGTCGTGTGG
1 AAACCTTTGTAGCGATAAAAGAAATGGAAGCCTTTATGGTCATTTAAGAAATGGAAGCCGTGTGG
* ** *
53150853 AAAATAAAGAAAGGACGCCTTTATGGTGCACTTTAAAGAAAGGCCCTTATGGAAACCTT-TCGAA
66 AAAATAAAGAAAGGAAGCCTTTATGGCACACTCTAAAGAAAGGCCCTTATGGAAACCTTCT-GAA
* *
53150917 AGAAACA-CCTCTGTAGTGGACACTAAAGG
130 AGAAA-AGCCTCTATAGTAGACACTAAAGG
53150946 AAAGAAATGA
Statistics
Matches: 136, Mismatches: 20, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
172 1 0.01
173 134 0.99
174 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (173 bp):
AAACCTTTGTAGCGATAAAAGAAATGGAAGCCTTTATGGTCATTTAAGAAATGGAAGCCGTGTGG
AAAATAAAGAAAGGAAGCCTTTATGGCACACTCTAAAGAAAGGCCCTTATGGAAACCTTCTGAAA
GAAAAGCCTCTATAGTAGACACTAAAGGTGATTTAAGAAATTA
Found at i:53158462 original size:19 final size:19
Alignment explanation
Indices: 53158438--53158478 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
53158428 AGTAATATCA
53158438 ATTGTATTCCACCTTCTTT
1 ATTGTATTCCACCTTCTTT
*
53158457 ATTGTATTCCATCTTCTTT
1 ATTGTATTCCACCTTCTTT
53158476 ATT
1 ATT
53158479 TAGGTATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.22, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTGTATTCCACCTTCTTT
Found at i:53160350 original size:22 final size:24
Alignment explanation
Indices: 53160325--53160375 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 24
53160315 TTTAGAATAT
*
53160325 AATATTAAAAAT-A-TATAAGTAA
1 AATATTAAAAATAATTATAACTAA
*
53160347 AATA--AAATATAATTATAACTAA
1 AATATTAAAAATAATTATAACTAA
53160369 AATATTA
1 AATATTA
53160376 TTTTACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 5 0.22
21 1 0.04
22 16 0.70
24 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATTAAAAATAATTATAACTAA
Found at i:53160356 original size:16 final size:17
Alignment explanation
Indices: 53160320--53160373 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
53160310 TATTTTTTAG
53160320 AATATAA-TATTAAA-AA
1 AATATAAGTA-TAAATAA
*
53160336 TATATAAGTA-AAATAA
1 AATATAAGTATAAATAA
* *
53160352 AATATAATTATAACTAA
1 AATATAAGTATAAATAA
53160369 AATAT
1 AATAT
53160374 TATTTTACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 3 0.10
16 16 0.52
17 12 0.39
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATATAAGTATAAATAA
Found at i:53160668 original size:23 final size:24
Alignment explanation
Indices: 53160620--53160671 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
53160610 AATTCTCAAG
*
53160620 ATTAAAAGTATATATAATATTAAAA
1 ATTAAAAG-ATATATAATATAAAAA
53160645 ATTAAAA-ATATATAAT-TAAGAAA
1 ATTAAAAGATATATAATATAA-AAA
53160668 ATTA
1 ATTA
53160672 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
25 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTAAAAGATATATAATATAAAAA
Found at i:53160700 original size:19 final size:19
Alignment explanation
Indices: 53160642--53160700 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
53160632 TATAATATTA
53160642 AAAATTAAAAATATATAAT
1 AAAATTAAAAATATATAAT
* * *
53160661 -TAA-GAAAATTATATTAA-
1 AAAATTAAAAATATA-TAAT
53160678 AAAATTAAAAATATATAAT
1 AAAATTAAAAATATATAAT
53160697 AAAA
1 AAAA
53160701 CTAATTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.27
18 10 0.33
19 12 0.40
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTAAAAATATATAAT
Found at i:53170479 original size:85 final size:86
Alignment explanation
Indices: 53170318--53170553 Score: 316
Period size: 85 Copynumber: 2.8 Consensus size: 86
53170308 ATACCTACCG
* * * * * *
53170318 TTCCTTTAGACTTCGCCATTCATACTATCCTTTCAGAGTTCGTCAATG-ATACCATTGCTTTCCT
1 TTCCTTCAGAGTTTGCCATTCATACTATCCCTTCAGAGTTCGTCAA-GAATACCATTTCTTTCTT
53170382 TTAGAATCTACCACAAAGGTGT
65 TTAGAATCTACCACAAAGGTGT
*
53170404 TTCTTTCAGAGTTT-CCATTCATACTATCCCTTCAGAGTTCGTCAAGAATACCATTTCTTTCTTT
1 TTCCTTCAGAGTTTGCCATTCATACTATCCCTTCAGAGTTCGTCAAGAATACCATTTCTTTCTTT
** *
53170468 TAGGGTTTACCACAAAGGTGT
66 TAGAATCTACCACAAAGGTGT
* * *
53170489 TTCCTTCATAGTTTGCCATTCATACTATCCCTTTAGAGTTCGTC-AGAAATATCATTTCTTTCTT
1 TTCCTTCAGAGTTTGCCATTCATACTATCCCTTCAGAGTTCGTCAAG-AATACCATTTCTTTCTT
53170553 T
65 T
53170554 CAAGGTCCGC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
84 1 0.01
85 77 0.58
86 55 0.41
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (86 bp):
TTCCTTCAGAGTTTGCCATTCATACTATCCCTTCAGAGTTCGTCAAGAATACCATTTCTTTCTTT
TAGAATCTACCACAAAGGTGT
Found at i:53170577 original size:86 final size:85
Alignment explanation
Indices: 53170333--53170580 Score: 270
Period size: 85 Copynumber: 2.9 Consensus size: 85
53170323 TTAGACTTCG
* * * *
53170333 CCATTCATACTATCCTTTCAGAGTTCGTCAATG-ATACCATTGCTTTCCTTT--AGAATCTACCA
1 CCATTCATACTATCCCTTCAGAGTTCGTCAA-GAATACCATTTCTTT-CTTTCAAG-GTCCACCA
* *
53170395 CAAAGGTGTTTCTTTCAGAGTTT
63 CAAAGGCGTTTCCTTCAGAGTTT
* * **
53170418 CCATTCATACTATCCCTTCAGAGTTCGTCAAGAATACCATTTCTTTCTTTTAGGGTTTACCACAA
1 CCATTCATACTATCCCTTCAGAGTTCGTCAAGAATACCATTTCTTTCTTTCAAGGTCCACCACAA
* *
53170483 AGGTGTTTCCTTCATAGTTT
66 AGGCGTTTCCTTCAGAGTTT
* * * *
53170503 GCCATTCATACTATCCCTTTAGAGTTCGTC-AGAAATATCATTTCTTTCTTTCAAGGTCCGCCAT
1 -CCATTCATACTATCCCTTCAGAGTTCGTCAAG-AATACCATTTCTTTCTTTCAAGGTCCACCAC
*
53170567 AGAGGCGTTTCCTT
64 AAAGGCGTTTCCTT
53170581 TAGATGGTTG
Statistics
Matches: 141, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
84 5 0.04
85 71 0.50
86 65 0.46
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (85 bp):
CCATTCATACTATCCCTTCAGAGTTCGTCAAGAATACCATTTCTTTCTTTCAAGGTCCACCACAA
AGGCGTTTCCTTCAGAGTTT
Found at i:53170744 original size:27 final size:28
Alignment explanation
Indices: 53170665--53170746 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
53170655 TTCCTGTTGT
*
53170665 TAGATCGCCACAAAGGCTTCCA-TTTCA
1 TAGATTGCCACAAAGGCTTCCATTTTCA
* *
53170692 TAGATTTCCCCAAAGGCTTCCATTTTC-
1 TAGATTGCCACAAAGGCTTCCATTTTCA
*
53170719 TAGATTGCCATAAAGGCTTCCATTTTCA
1 TAGATTGCCACAAAGGCTTCCATTTTCA
53170747 AGCGTGTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 43 0.91
28 4 0.09
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (28 bp):
TAGATTGCCACAAAGGCTTCCATTTTCA
Found at i:53172619 original size:23 final size:24
Alignment explanation
Indices: 53172569--53172725 Score: 88
Period size: 24 Copynumber: 6.6 Consensus size: 24
53172559 GTCTTGTAAT
*
53172569 AGGAAGCTCACACAGAGCCATTTC
1 AGGAAGCTCACAAAGAGCCATTTC
*
53172593 AGGAAGCTCATAAAGAGCC-TTTC
1 AGGAAGCTCACAAAGAGCCATTTC
* ** * * *
53172616 AGGAAGCTTACCCAG-GCTATATA
1 AGGAAGCTCACAAAGAGCCATTTC
* *
53172639 ATGGGAAGCTCA-TAAGAGCCATAATC
1 A--GGAAGCTCACAAAGAGCCAT-TTC
* * * *
53172665 GGGAAGTTCACAAAGAACCATATC
1 AGGAAGCTCACAAAGAGCCATTTC
* ** *
53172689 GGGAAGCTCATGAAGAGCC-TATC
1 AGGAAGCTCACAAAGAGCCATTTC
*
53172712 AAGAAGCTCACAAA
1 AGGAAGCTCACAAA
53172726 AAGCAATGTA
Statistics
Matches: 101, Mismatches: 26, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
22 2 0.02
23 32 0.32
24 45 0.45
25 20 0.20
26 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (24 bp):
AGGAAGCTCACAAAGAGCCATTTC
Found at i:53172622 original size:47 final size:46
Alignment explanation
Indices: 53172569--53172723 Score: 141
Period size: 47 Copynumber: 3.3 Consensus size: 46
53172559 GTCTTGTAAT
* *
53172569 AGGAAGCTCACACAGAGCCATTTCAGGAAGCTCATAAAGAGCCTTTC
1 AGGAAGCTCACACAGAGCCATATCAGGAAGCTCAT-AAGAGCCTATC
* * * *
53172616 AGGAAGCTTACCCAG-GCTATATAATGGGAAGCTCATAAGAGCCATAATC
1 AGGAAGCTCACACAGAGCCATATCA--GGAAGCTCATAAGAGCC-T-ATC
* * * * *
53172665 GGGAAGTTCACAAAGAACCATATCGGGAAGCTCATGAAGAGCCTATC
1 AGGAAGCTCACACAGAGCCATATCAGGAAGCTCAT-AAGAGCCTATC
*
53172712 AAGAAGCTCACA
1 AGGAAGCTCACA
53172724 AAAAGCAATG
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
46 6 0.07
47 32 0.38
48 22 0.26
49 19 0.23
50 5 0.06
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (46 bp):
AGGAAGCTCACACAGAGCCATATCAGGAAGCTCATAAGAGCCTATC
Found at i:53181433 original size:40 final size:40
Alignment explanation
Indices: 53181387--53181570 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
53181377 CTTGCACAAG
* * *
53181387 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
53181427 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
53181467 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
53181507 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
53181547 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53181571 CATTCGAATG
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 124 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:53190659 original size:25 final size:25
Alignment explanation
Indices: 53190631--53190691 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
53190621 GTTGTGAATT
* * *
53190631 GGTATGCTCACTCGAGCTATAGATC
1 GGTATGCTCACGCGAGCTATAAATA
*
53190656 GGTATGCTCTCGCGAGCTATAAATA
1 GGTATGCTCACGCGAGCTATAAATA
*
53190681 GGTATACTCAC
1 GGTATGCTCAC
53190692 ATGATTTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
GGTATGCTCACGCGAGCTATAAATA
Found at i:53194369 original size:18 final size:18
Alignment explanation
Indices: 53194346--53194383 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
53194336 AAAAATCACT
53194346 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
53194364 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
53194383 T
1 T
53194384 TAATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:53205130 original size:24 final size:24
Alignment explanation
Indices: 53205103--53205160 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
53205093 ATAAGAGCCA
53205103 TAATCGGGAAGTTCACAAAGAACC
1 TAATCGGGAAGTTCACAAAGAACC
*
53205127 TAATCAGGAAGTTCACAAAGAACC
1 TAATCGGGAAGTTCACAAAGAACC
53205151 -ATATCGGGAA
1 TA-ATCGGGAA
53205161 TCTCCAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (24 bp):
TAATCGGGAAGTTCACAAAGAACC
Found at i:53205379 original size:24 final size:24
Alignment explanation
Indices: 53205328--53205385 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
53205318 TCCGAAGAGC
*
53205328 TATAACGGGAAGCTCGCTGAACCA
1 TATAACGGGAAGCTCGCAGAACCA
* *
53205352 TATAACGGGAAGCTCG-AGAAGGCT
1 TATAACGGGAAGCTCGCAGAA-CCA
53205376 TATAACGGGA
1 TATAACGGGA
53205386 CACTCATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.17
Consensus pattern (24 bp):
TATAACGGGAAGCTCGCAGAACCA
Found at i:53208218 original size:49 final size:49
Alignment explanation
Indices: 53208155--53208801 Score: 356
Period size: 49 Copynumber: 13.7 Consensus size: 49
53208145 AACACATCAA
* *
53208155 GTCGATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATC-AGT
* * * * *
53208204 GTCGATGCCGTGTCCCAGATAGGTTTTACACT-AGCTCTCATCTATCAGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCAGT
* **
53208253 GTCGATGCCATGTCCCAGACATGTCTTATGCTGACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATC-AGT
* *** * * * *
53208302 GCCGATGTTGTGTCCCAGACAAGTCTTACACTGGCTCTCATCTATCAGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGT
* * *
53208351 GTCGATGCCATGTCCTAGACAGGTCTTACACTAAATTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATC-AGT
* * * * * *
53208400 GCCGATGCCGTGTCCCAGATAGTTCTTACACTGGCTCTT-ATCTATCAGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCAGT
* * *
53208449 GCCGATGCCATGTCCCAAACAGGTCTTACACTAACTTTC--ATAT-A--
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGT
* * * * * *
53208493 -TCGA---CGTGTCCCAGATAGGTCTTACACTGGCTCTCATTTATCGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGT
* * * **
53208538 GTCGATGCCATGTCCCA-AGCAGGTCTTACACTAAC--ACACA-A-CAAA
1 GTCGATGCCATGTCCCAGA-CAGGTCTTACACTGACTTTCATATATCAGT
* * * * *
53208583 CT-GACGCCATGTCCCAGATAGGTCTTACACT-AGCTTGT-ATATCTTGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATAT-ATCAGT
* * * * *
53208631 GTCGATG-CATGTCCCAGACATGTCTTACACT-A-GTTC-TCGTCTCAAT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCAT-ATATCAGT
* * * *
53208677 GTCGATG-CATGTCCCAGACATGTCTTACACTGGCTGGT-ATATCTCAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCAGT
* ** * * * *
53208724 GGC-ATATACATGTCCCAAACATGTCTTACACTGGCTCTCA-ATAT--GT
1 GTCGAT-GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGT
* *
53208770 GGTCGATG-CATGTCCCAAACATGTCTTACACT
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACT
53208802 AGCACATATC
Statistics
Matches: 459, Mismatches: 98, Indels: 85
0.71 0.15 0.13
Matches are distributed among these distances:
40 25 0.05
42 3 0.01
43 4 0.01
44 26 0.06
45 8 0.02
46 67 0.15
47 13 0.03
48 69 0.15
49 237 0.52
50 7 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAGT
Found at i:53208331 original size:98 final size:98
Alignment explanation
Indices: 53208155--53208572 Score: 543
Period size: 98 Copynumber: 4.4 Consensus size: 98
53208145 AACACATCAA
* * * *
53208155 GTCGATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
* * *
53208220 AGATAGGTTTTACACTAGCTCTCATCTATCAGT
66 AGATAAGTCTTACACTGGCTCTCATCTATCAGT
* ** * **
53208253 GTCGATGCCATGTCCCAGACATGTCTTATGCTGACTTTCATATATCGAGGCCGATGTTGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
*
53208318 AGACAAGTCTTACACTGGCTCTCATCTATCAGT
66 AGATAAGTCTTACACTGGCTCTCATCTATCAGT
* *
53208351 GTCGATGCCATGTCCTAGACAGGTCTTACACTAAATTTCATATATCGAGGCCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
*
53208416 AGAT-AGTTCTTACACTGGCTCTTATCTATCAGT
66 AGATAAG-TCTTACACTGGCTCTCATCTATCAGT
* *
53208449 GCCGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATAT------CGA---CGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
* * *
53208505 AGATAGGTCTTACACTGGCTCTCATTTATCGGT
66 AGATAAGTCTTACACTGGCTCTCATCTATCAGT
53208538 GTCGATGCCATGTCCCA-AGCAGGTCTTACACTAAC
1 GTCGATGCCATGTCCCAGA-CAGGTCTTACACTAAC
53208573 ACACAACAAA
Statistics
Matches: 286, Mismatches: 31, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
88 1 0.00
89 67 0.23
90 1 0.00
92 3 0.01
97 2 0.01
98 212 0.74
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCC
AGATAAGTCTTACACTGGCTCTCATCTATCAGT
Found at i:53208453 original size:147 final size:147
Alignment explanation
Indices: 53208157--53208802 Score: 395
Period size: 147 Copynumber: 4.5 Consensus size: 147
53208147 CACATCAAGT
* * * *
53208157 CGATGTCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGTCGATGCCGTGTCCCAG
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATGCCATGTCCCAG
* * ** * * **
53208222 ATAGGTTTTACACTAGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACATGTCTTATGCTGA
66 ACAGGTCTTACACTAAATCTCATATATCAGTGCCGATGCCATGTCCCAGACATGTCTTACACTGA
53208287 CTTTCATATATCGAGGC
131 CTTTCATATATCGAGGC
*** * * * *
53208304 CGATGTTGTGTCCCAGACAAGTCTTACACTGGCTCTCATCTATC-AGTGTCGATGCCATGTCCTA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GTCGATGCCATGTCCCA
* * *
53208368 GACAGGTCTTACACTAAATTTCATATATCGAG-GCCGATGCCGTGTCCCAGATA-GTTCTTACAC
65 GACAGGTCTTACACTAAATCTCATATATC-AGTGCCGATGCCATGTCCCAGACATG-TCTTACAC
* *
53208431 TGGCTCTT-ATCTATC-AGTGC
128 TGACT-TTCATATATCGAG-GC
* * *
53208451 CGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATATCGA---C---G---TGTCCCAG
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATGCCATGTCCCAG
* *** * * * * *
53208507 ATAGGTCTTACACTGGCTCTCATTTATCGGTGTCGATGCCATGTCCCA-AGCAGGTCTTACACTA
66 ACAGGTCTTACACTAAATCTCATATATCAGTGCCGATGCCATGTCCCAGA-CATGTCTTACACTG
* * **
53208571 AC--ACACA-A-C-AAAC
130 ACTTTCATATATCGAGGC
* * * *
53208584 TGACGCCATGTCCCAGATAGGTCTTACACT-AGCT-T-GTATATCTTGAGGTCGATG-CATGTCC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATC--GAGGTCGATGCCATGTCC
* ** * * * *
53208645 CAGACATGTCTTACACTAGTTCTC--GTCTCAATGTCGATG-CATGTCCCAGACATGTCTTACAC
63 CAGACAGGTCTTACACTAAATCTCATATATCAGTGCCGATGCCATGTCCCAGACATGTCTTACAC
* * * *
53208707 TGGCTGGT-ATATCTC-AGGG
128 TGACT-TTCATATATCGAGGC
** * * * *
53208726 C-ATATACATGTCCCAAACATGTCTTACACTGGCTCTCA-ATAT-GTGGTCGATG-CATGTCCCA
1 CGAT-GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATGCCATGTCCCA
* *
53208787 AACATGTCTTACACTA
65 GACAGGTCTTACACTA
53208803 GCACATATCA
Statistics
Matches: 386, Mismatches: 82, Indels: 69
0.72 0.15 0.13
Matches are distributed among these distances:
131 6 0.02
132 2 0.01
133 31 0.08
134 2 0.01
135 1 0.00
136 2 0.01
137 2 0.01
138 77 0.20
139 14 0.04
140 35 0.09
141 27 0.07
142 25 0.06
143 5 0.01
144 1 0.00
146 5 0.01
147 146 0.38
148 5 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (147 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATGCCATGTCCCAG
ACAGGTCTTACACTAAATCTCATATATCAGTGCCGATGCCATGTCCCAGACATGTCTTACACTGA
CTTTCATATATCGAGGC
Done.