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 124 of 235
Found at i:42287333 original size:26 final size:26
Alignment explanation
Indices: 42287303--42287383 Score: 162
Period size: 26 Copynumber: 3.1 Consensus size: 26
42287293 GTATTTGGCC
42287303 ATGATGCTTAGATTGTTTTGGAAACT
1 ATGATGCTTAGATTGTTTTGGAAACT
42287329 ATGATGCTTAGATTGTTTTGGAAACT
1 ATGATGCTTAGATTGTTTTGGAAACT
42287355 ATGATGCTTAGATTGTTTTGGAAACT
1 ATGATGCTTAGATTGTTTTGGAAACT
42287381 ATG
1 ATG
42287384 TTATATATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.42
Consensus pattern (26 bp):
ATGATGCTTAGATTGTTTTGGAAACT
Found at i:42291995 original size:21 final size:21
Alignment explanation
Indices: 42291949--42292022 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
42291939 AAAACACACT
42291949 AACAGAAGCTCAT--AA--TG
1 AACAGAAGCTCATAAAAGCTG
* *
42291966 AATAGAAGCTCATAAAAGCTT
1 AACAGAAGCTCATAAAAGCTG
42291987 AACAGAAGCTCATAAAAGCTG
1 AACAGAAGCTCATAAAAGCTG
42292008 AACAGAAGCTCATAA
1 AACAGAAGCTCATAA
42292023 GAGTTGATCC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.24
19 2 0.04
21 35 0.71
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTG
Found at i:42301546 original size:5 final size:5
Alignment explanation
Indices: 42301536--42301574 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
42301526 ATATAATGTT
*
42301536 ATATC ACATC ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
42301575 AGTATATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATC
Found at i:42301975 original size:30 final size:28
Alignment explanation
Indices: 42301900--42301976 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 28
42301890 ATATCTTTTT
* *
42301900 TATTATAATCTATATTATAATAGTTATA
1 TATTATAATATATTTTATAATAGTTATA
42301928 TATGTATTAATAT-TTTTAGTAATAGTTATA
1 TAT-TA-TAATATATTTTA-TAATAGTTATA
42301958 TATTATAATATTATTTTAT
1 TATTATAATA-TATTTTAT
42301977 GTATTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 8 0.19
29 10 0.24
30 24 0.57
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (28 bp):
TATTATAATATATTTTATAATAGTTATA
Found at i:42303192 original size:18 final size:18
Alignment explanation
Indices: 42303169--42303232 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
42303159 GAACAATTAT
*
42303169 TTATTCAGTACTAGTCAG
1 TTATTCAGTACTAATCAG
* *
42303187 TTATTCGGTAAC-AATCAA
1 TTATTCAGT-ACTAATCAG
* *
42303205 TTATTCAATAATAATCAG
1 TTATTCAGTACTAATCAG
42303223 TTATTCAGTA
1 TTATTCAGTA
42303233 TCAGTCAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.03
18 33 0.92
19 2 0.06
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TTATTCAGTACTAATCAG
Found at i:42303201 original size:36 final size:36
Alignment explanation
Indices: 42303160--42303242 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
42303150 AATCAATCAG
* * * * *
42303160 AACAATTATTTATTCAGTACTAGTCAGTTATTCGGT
1 AACAATCAATTATTCAATAATAATCAGTTATTCGGT
*
42303196 AACAATCAATTATTCAATAATAATCAGTTATTCAGT
1 AACAATCAATTATTCAATAATAATCAGTTATTCGGT
* *
42303232 ATCAGTCAATT
1 AACAATCAATT
42303243 GATCGGTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
AACAATCAATTATTCAATAATAATCAGTTATTCGGT
Found at i:42303503 original size:6 final size:6
Alignment explanation
Indices: 42303492--42303516 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42303482 ACAAATCCGG
42303492 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
42303517 GCAATATTCA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:42303610 original size:45 final size:45
Alignment explanation
Indices: 42303500--42303639 Score: 176
Period size: 45 Copynumber: 3.1 Consensus size: 45
42303490 GGAACAGTAA
* * * *
42303500 CAGTAACAGTAACAGTAGCAATATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
42303545 CAATAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
42303590 CAGTAACAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCC-AGAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGA-AT
42303634 CAGTAA
1 CAGTAA
42303640 GCCGACAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.01
44 15 0.18
45 67 0.81
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:42305530 original size:42 final size:40
Alignment explanation
Indices: 42305474--42305553 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
42305464 ATAATTACCA
* *
42305474 TACAATTATTAAAATAATATTATAATATTATTAATATAAAT
1 TACAATTAATAAAATAATAATATAATATTATTAA-ATAAAT
* *
42305515 TACAATATAATAAAATAATAATATAGTCTTATTAAATAA
1 TACAAT-TAATAAAATAATAATATAATATTATTAAATAA
42305554 TACATTCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 10 0.29
42 24 0.71
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (40 bp):
TACAATTAATAAAATAATAATATAATATTATTAAATAAAT
Found at i:42307583 original size:15 final size:16
Alignment explanation
Indices: 42307555--42307584 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42307545 TTTGAGCAAT
42307555 ATTTTATATAATTTTG
1 ATTTTATATAATTTTG
42307571 ATTTTAT-TAATTTT
1 ATTTTATATAATTTT
42307585 AGAGTAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTTATATAATTTTG
Found at i:42322948 original size:2 final size:2
Alignment explanation
Indices: 42322941--42322966 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42322931 GGAAGAACTA
42322941 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
42322967 CAATATTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42324666 original size:21 final size:22
Alignment explanation
Indices: 42324640--42324686 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
42324630 CTCTGCTCAA
*
42324640 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
42324661 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
42324683 ACTC
1 ACTC
42324687 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:42327875 original size:21 final size:22
Alignment explanation
Indices: 42327849--42327895 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
42327839 CTCTGCTCAA
*
42327849 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
42327870 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
42327892 ACTC
1 ACTC
42327896 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:42330871 original size:22 final size:21
Alignment explanation
Indices: 42330836--42330888 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
42330826 ATATGTATAC
* * *
42330836 TAATATTATTTAAATTTAATTA
1 TAATAATATATAAAATT-ATTA
42330858 TAATAATATATAAAATTATTA
1 TAATAATATATAAAATTATTA
*
42330879 TCA-AATATAT
1 TAATAATATAT
42330889 TTTTAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 6 0.22
22 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAATATATAAAATTATTA
Found at i:42333127 original size:20 final size:19
Alignment explanation
Indices: 42333059--42333139 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 19
42333049 GTATTGTTAT
42333059 TTTTTAATAAAAATTTTATAA
1 TTTTTAAT--AAATTTTATAA
* **
42333080 -TTGTAA-ACTTTTTATAA
1 TTTTTAATAAATTTTATAA
*
42333097 CTTTTTTATAAATTTTATAA
1 -TTTTTAATAAATTTTATAA
* *
42333117 TTTTATAATAATTTTTAAAA
1 TTTT-TAATAAATTTTATAA
42333137 TTT
1 TTT
42333140 AGAAGGGTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
17 9 0.20
19 8 0.17
20 29 0.63
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTTTAATAAATTTTATAA
Found at i:42335811 original size:18 final size:16
Alignment explanation
Indices: 42335783--42335822 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
42335773 CAATTTCTAT
*
42335783 TAAATTATAATTCTTAA
1 TAAATTATAATTATT-A
42335800 TAAATGTATAATTATTA
1 TAAAT-TATAATTATTA
42335817 TAAATT
1 TAAATT
42335823 CTATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 11 0.52
18 9 0.43
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAATTATAATTATTA
Found at i:42335825 original size:44 final size:44
Alignment explanation
Indices: 42335739--42335827 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
42335729 TAAATATAAA
* * *
42335739 TAAATTATAATTATGTCTAAATGTGTAATTATCACAATTTCTAT
1 TAAATTATAATTATGTATAAATGTATAATTATCACAAATTCTAT
* * *
42335783 TAAATTATAATTCT-TAATAAATGTATAATTATTATAAATTCTAT
1 TAAATTATAATTATGT-ATAAATGTATAATTATCACAAATTCTAT
42335827 T
1 T
42335828 TTATAGTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (44 bp):
TAAATTATAATTATGTATAAATGTATAATTATCACAAATTCTAT
Found at i:42345041 original size:48 final size:49
Alignment explanation
Indices: 42344968--42345093 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
42344958 TTCTAAAAAT
* * * *
42344968 AATATTATTTTAATAGATTTAATATTTAATTTAATTTAATACTTAT-TTG
1 AATAGTATTTTATTA-ATTTAATATTAAATTTAATATAATACTTATCTTG
*
42345017 AATAGTATTTTATTAATTTAATATTAAATTTAATATAATATTTATCTTG
1 AATAGTATTTTATTAATTTAATATTAAATTTAATATAATACTTATCTTG
*
42345066 -ATAAGTATTATATTAATTTAATATTAAA
1 AAT-AGTATTTTATTAATTTAATATTAAA
42345094 GTGATTAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 29 0.42
49 40 0.58
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (49 bp):
AATAGTATTTTATTAATTTAATATTAAATTTAATATAATACTTATCTTG
Found at i:42345048 original size:12 final size:11
Alignment explanation
Indices: 42344991--42345052 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
42344981 TAGATTTAAT
42344991 ATTTAAT-TTA
1 ATTTAATATTA
42345001 ATTTAATACTT-
1 ATTTAATA-TTA
*
42345012 ATTTGAATAGT-
1 ATTT-AATATTA
42345023 ATTT--TATTA
1 ATTTAATATTA
42345032 ATTTAATATTAA
1 ATTTAATATT-A
42345044 ATTTAATAT
1 ATTTAATAT
42345053 AATATTTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 3 0.07
9 4 0.09
10 7 0.16
11 13 0.30
12 16 0.37
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (11 bp):
ATTTAATATTA
Found at i:42347005 original size:20 final size:20
Alignment explanation
Indices: 42346973--42347010 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42346963 TGTTTCACAT
42346973 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
42346993 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
42347011 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:42348011 original size:616 final size:616
Alignment explanation
Indices: 42346838--42348069 Score: 2410
Period size: 616 Copynumber: 2.0 Consensus size: 616
42346828 AGTAAAATGG
42346838 GACTTGTTCGAGTGTTCCGGAAAAAATTTCGTTTTTTTTATTTTTTTTATAAAAATTTCGGCAGC
1 GACTTGTTCGAGTGTTCCGGAAAAAATTTCGTTTTTTTTATTTTTTTTATAAAAATTTCGGCAGC
42346903 ATTTCTGCTTATTTTTACCTAAAACCCCCTGCAAATTCAAACCAAAACAACCAACACCAATGTTT
66 ATTTCTGCTTATTTTTACCTAAAACCCCCTGCAAATTCAAACCAAAACAACCAACACCAATGTTT
42346968 CACATTCATATAACTAATATTTATATCATTAACATAATTTTTAACTTAATAACTATCATAGCATC
131 CACATTCATATAACTAATATTTATATCATTAACATAATTTTTAACTTAATAACTATCATAGCATC
*
42347033 ATTCAAAATTGATTAAAAACTTCATTCATTTAACCATCTAAATCTTATAATTCATCCTTCACTAC
196 ATTCAAAATTGATTAAAAACTTCATTCATTTAACCATCTAAATCTTATAATTCATCCTTAACTAC
42347098 CCAAAGTAATATACATATTCAAGTGACTAAACAACACCTATGTACATGCCACCTTTACCCAAAAG
261 CCAAAGTAATATACATATTCAAGTGACTAAACAACACCTATGTACATGCCACCTTTACCCAAAAG
42347163 AAAAATATACATCACCAAATTTGTGTTGGAGTCGGAAATGTTCTGGATGCTGAGCCAAGACAATT
326 AAAAATATACATCACCAAATTTGTGTTGGAGTCGGAAATGTTCTGGATGCTGAGCCAAGACAATT
42347228 GACTTCTACTAACCTGCGCACGGAAACAATCGTACGCTGAGTATGAATATATTCAGTGGTATTAC
391 GACTTCTACTAACCTGCGCACGGAAACAATCGTACGCTGAGTATGAATATATTCAGTGGTATTAC
42347293 CATAATTCAAAATATATCATCAATAATAAAAATATGAATATTAAAATACATAACAATTAATTTCT
456 CATAATTCAAAATATATCATCAATAATAAAAATATGAATATTAAAATACATAACAATTAATTTCT
42347358 TAAATACTAATTCATACTTTATTTTTATTTTTATTTTCTTTATTTCATAATAACAATTCAATTTA
521 TAAATACTAATTCATACTTTATTTTTATTTTTATTTTCTTTATTTCATAATAACAATTCAATTTA
42347423 ATTATTCGTCAATCAATGTATTTTTCACAAA
586 ATTATTCGTCAATCAATGTATTTTTCACAAA
42347454 GACTTGTTCGAGTGTTCCGGAAAAAATTTCGTTTTTTTTATTTTTTTTATAAAAATTTCGGCAGC
1 GACTTGTTCGAGTGTTCCGGAAAAAATTTCGTTTTTTTTATTTTTTTTATAAAAATTTCGGCAGC
42347519 ATTTCTGCTTATTTTTACCTAAAACCCCCTGCAAATTCAAACCAAAACAACCAACACCAATGTTT
66 ATTTCTGCTTATTTTTACCTAAAACCCCCTGCAAATTCAAACCAAAACAACCAACACCAATGTTT
* *
42347584 CACATTCCTATAACTAATATTTATATCATTAACATAATTTTTAACTTAATACCTATCATAGCATC
131 CACATTCATATAACTAATATTTATATCATTAACATAATTTTTAACTTAATAACTATCATAGCATC
42347649 ATTCAAAATTGATTAAAAACTTCATTCATTTAACCATCTAAATCTTATAATTCATCCTTAACTAC
196 ATTCAAAATTGATTAAAAACTTCATTCATTTAACCATCTAAATCTTATAATTCATCCTTAACTAC
* *
42347714 CCAAAGTAATATACATATTCAAGTGACTATATAACACCTATGTACATGCCACCTTTACCCAAAAG
261 CCAAAGTAATATACATATTCAAGTGACTAAACAACACCTATGTACATGCCACCTTTACCCAAAAG
42347779 AAAAATATACATCACCAAATTTGTGTTGGAGTCGGAAATGTTCTGGATGCTGAGCCAAGACAATT
326 AAAAATATACATCACCAAATTTGTGTTGGAGTCGGAAATGTTCTGGATGCTGAGCCAAGACAATT
42347844 GACTTCTACTAACCTGCGCACGGAAACAATCGTACGCTGAGTATGAATATATTCAGTGGTATTAC
391 GACTTCTACTAACCTGCGCACGGAAACAATCGTACGCTGAGTATGAATATATTCAGTGGTATTAC
42347909 CATAATTCAAAATATATCATCAATAATAAAAATATGAATATTAAAATACATAACAATTAATTTCT
456 CATAATTCAAAATATATCATCAATAATAAAAATATGAATATTAAAATACATAACAATTAATTTCT
*
42347974 TAAATACTAATTCATACTTTATTTTTATTTTTATTTTCTTTATTTCATAATAACAGTTCAATTTA
521 TAAATACTAATTCATACTTTATTTTTATTTTTATTTTCTTTATTTCATAATAACAATTCAATTTA
42348039 ATTATTCGTCAATCAATGTATTTTTCACAAA
586 ATTATTCGTCAATCAATGTATTTTTCACAAA
42348070 CTTGAATTTA
Statistics
Matches: 610, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
616 610 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (616 bp):
GACTTGTTCGAGTGTTCCGGAAAAAATTTCGTTTTTTTTATTTTTTTTATAAAAATTTCGGCAGC
ATTTCTGCTTATTTTTACCTAAAACCCCCTGCAAATTCAAACCAAAACAACCAACACCAATGTTT
CACATTCATATAACTAATATTTATATCATTAACATAATTTTTAACTTAATAACTATCATAGCATC
ATTCAAAATTGATTAAAAACTTCATTCATTTAACCATCTAAATCTTATAATTCATCCTTAACTAC
CCAAAGTAATATACATATTCAAGTGACTAAACAACACCTATGTACATGCCACCTTTACCCAAAAG
AAAAATATACATCACCAAATTTGTGTTGGAGTCGGAAATGTTCTGGATGCTGAGCCAAGACAATT
GACTTCTACTAACCTGCGCACGGAAACAATCGTACGCTGAGTATGAATATATTCAGTGGTATTAC
CATAATTCAAAATATATCATCAATAATAAAAATATGAATATTAAAATACATAACAATTAATTTCT
TAAATACTAATTCATACTTTATTTTTATTTTTATTTTCTTTATTTCATAATAACAATTCAATTTA
ATTATTCGTCAATCAATGTATTTTTCACAAA
Found at i:42349651 original size:21 final size:22
Alignment explanation
Indices: 42349578--42349651 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 22
42349568 AAGTAAATTA
*
42349578 ATTA-TTTTATTACAAGTGTAC
1 ATTATTTTTATTACAAATGTAC
*
42349599 ATATATCTATTTGTTACAAATGTACC
1 AT-TAT-T-TTTATTACAAATGTA-C
* *
42349625 AATATTTTTATTACAATTGT-C
1 ATTATTTTTATTACAAATGTAC
42349646 ATTATT
1 ATTATT
42349652 CAATTTGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
21 8 0.19
22 2 0.05
23 12 0.29
24 2 0.05
25 16 0.38
26 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTATTTTTATTACAAATGTAC
Found at i:42351320 original size:18 final size:18
Alignment explanation
Indices: 42351294--42351338 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
42351284 GAACACCTAC
*
42351294 AAGCTCATCTAAAACTGT
1 AAGCTCATCCAAAACTGT
42351312 GAA-CTCATCCAAAACTGT
1 -AAGCTCATCCAAAACTGT
42351330 AAGCTCATC
1 AAGCTCATC
42351339 AAATGTGCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (18 bp):
AAGCTCATCCAAAACTGT
Found at i:42352010 original size:26 final size:26
Alignment explanation
Indices: 42351981--42352034 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
42351971 CTTCACGCTT
42351981 AAGATTGTAGTTGTTAACTTGCTGCA
1 AAGATTGTAGTTGTTAACTTGCTGCA
42352007 AAGATTGTAGTTGTTAACTTGCTGCA
1 AAGATTGTAGTTGTTAACTTGCTGCA
42352033 AA
1 AA
42352035 CTTTCGGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (26 bp):
AAGATTGTAGTTGTTAACTTGCTGCA
Found at i:42353197 original size:107 final size:108
Alignment explanation
Indices: 42352975--42354069 Score: 1160
Period size: 106 Copynumber: 10.3 Consensus size: 108
42352965 ATTGGTATAC
*
42352975 AAAATACGAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
** * *
42353040 AAAAAAAGTTCGACTTTTTTTTCAAAAAAAATTTTTTTGCTCTTTA
66 AAAAAAA-TTC-AAATTTTTTTCAAAAAAAA-ATTTTTGCTCTCTA
** * *
42353086 AAAATACGAG-TTAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTAAAACAA
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
42353150 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
*
42353193 AAAATACGAGTTTTAAAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAATACAAC-
1 AAAATACGAG-TTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
*
42353256 AAAAAAAA-TCGAATTATTTTTC-AAAAAAAATATTTTGCTCTCTA
65 AAAAAAAATTCAAATT-TTTTTCAAAAAAAAAT-TTTTGCTCTCTA
* * *
42353300 AAAATACGAGTTTTAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCTGGCACCCAGTACAACA
1 AAAATACGAG-TTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
* *
42353365 AAAAAAAATTCGAATTATTTTTCAAAAAAAAATTTTTTACTCTCTA
65 AAAAAAAATTCAAATT-TTTTTCAAAAAAAAA-TTTTTGCTCTCTA
* *
42353411 AAAATAAGAGTTTTAAAAAAAAAA-TT-GGTGCTGGCCTGTCAATGGCCGGCACCTAGTAC-A-A
1 AAAATACGAG-TTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
* * *
42353472 TAAAAAAATTTAAATTTTTTGTCAAAAAAAAA--TTT-CTCCCTA
65 AAAAAAAATTCAAATTTTTT-TCAAAAAAAAATTTTTGCTCTCTA
* * * * * *
42353514 AAAATACAAGTTTTAAAAAAAAATTTTGATTCTGGCCTGTCAATGGCCGGCACCTAGTACAAC-A
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* * * *
42353578 AAAAAATTTCGATTTTTTTTCAAAAAAAAAATTTT-CTCTCTA
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
* * * * *
42353620 AAAGTACGAGTTTAAAAAAAAAAATTGGGTGCTAGCCTGTCAATGGCCGGCACCCAATGCAA-AA
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* * * ** * *
42353684 AGAAAAAGTCAATTTTTTTTCAAAAAATATTTTTTTTGCTATCTG
66 AAAAAAATTCAAATTTTTTTCAAAAAA-A-AATTTTTGCTCTCTA
** * * *
42353729 AAAATACTTGTTTTAAAAAAAAAAATTTGGGTGCTGGCCTATTAATGGCTGGCACCCAGT---AC
1 AAAATACGAG-TTT-AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
* **** * *
42353791 -AAAAAAAATTCGAATTTTTTTTCAAAAATTTTTTTTTTCCTCTTTA
64 AAAAAAAAATTC-AAATTTTTTTCAAAAA-AAAATTTTTGCTCTCTA
* * * *
42353837 AAAATACGAGTTTTAAAAAAAAATTT-GGTGCTGGCCTATTAATTGCCGGCACCCAGTACAAC-A
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* *
42353900 AAAAAAATT-GAATTTTTTTCAAAAAAAAATTTTT-CTCTAT-
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
* * *
42353940 AAAATACGACTTTTAAAAAAAAA-TT--G-G-T-G-CTGAC-A-GGCCGGCACCCAGTACAACAA
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
***** *
42353996 AAAAAAATTCAAATTTTTTTC-AAATTTTTTTTTTGCTTTCTA
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
*
42354038 AAAATACGAGTTTTAAAAAAAAATTTGGGTGC
1 AAAATACGAGTTTAAAAAAAAAATTTGGGTGC
42354070 AAAAAAAATT
Statistics
Matches: 846, Mismatches: 101, Indels: 82
0.82 0.10 0.08
Matches are distributed among these distances:
95 18 0.02
96 19 0.02
97 16 0.02
98 23 0.03
99 3 0.00
100 1 0.00
101 2 0.00
102 15 0.02
103 38 0.04
104 50 0.06
105 50 0.06
106 129 0.15
107 103 0.12
108 129 0.15
109 82 0.10
110 77 0.09
111 90 0.11
112 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (108 bp):
AAAATACGAGTTTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
Found at i:42353229 original size:108 final size:108
Alignment explanation
Indices: 42352975--42354065 Score: 1172
Period size: 108 Copynumber: 10.3 Consensus size: 108
42352965 ATTGGTATAC
*
42352975 AAAATACGAG-TTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
1 AAAATACGAGTTTTAAAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
** * *
42353039 AAAAAAAAGTTCGACTTTTTTTTCAAAAAAAATTTTTTTGCTCTTTA
65 AAAAAAAA-TTC-AAATTTTTTTCAAAAAAAA-ATTTTTGCTCTCTA
** * *
42353086 AAAATACGAG--TTAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTAAAACA
1 AAAATACGAGTTTTAAAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
42353149 AAAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
65 AAAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
*
42353193 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAAC-A
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
*
42353257 AAAAAAA-TCGAATTATTTTTC-AAAAAAAATATTTTGCTCTCTA
66 AAAAAAATTCAAATT-TTTTTCAAAAAAAAAT-TTTTGCTCTCTA
* * *
42353300 AAAATACGAGTTTTAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCTGGCACCCAGTACAACA
1 AAAATACGAGTTTTAAAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
* *
42353365 AAAAAAAATTCGAATTATTTTTCAAAAAAAAATTTTTTACTCTCTA
65 AAAAAAAATTCAAATT-TTTTTCAAAAAAAAA-TTTTTGCTCTCTA
* * *
42353411 AAAATAAGAGTTTTAAAAAAAAAA-TTGGTGCTGGCCTGTCAATGGCCGGCACCTAGTAC-A-AT
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* *
42353473 AAAAAAATTTAAATTTTTTGTCAAAAAAAAA--TTT-CTCCCTA
66 AAAAAAATTCAAATTTTTT-TCAAAAAAAAATTTTTGCTCTCTA
* * * * *
42353514 AAAATACAAGTTTTAAAAAAAAATTTTGATTCTGGCCTGTCAATGGCCGGCACCTAGTACAAC-A
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* * * *
42353578 AAAAAATTTCGATTTTTTTTCAAAAAAAAAATTTT-CTCTCTA
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
* * * * * *
42353620 AAAGTACGAGTTTAAAAAAAAAAATTGGGTGCTAGCCTGTCAATGGCCGGCACCCAATGCAA-AA
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* * * ** * *
42353684 AGAAAAAGTCAATTTTTTTTCAAAAAATATTTTTTTTGCTATCTG
66 AAAAAAATTCAAATTTTTTTCAAAAAA-A-AATTTTTGCTCTCTA
** * * *
42353729 AAAATACTTGTTTTAAAAAAAAAAATTTGGGTGCTGGCCTATTAATGGCTGGCACCCAGT---AC
1 AAAATACGAGTTTT-AAAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
* **** * *
42353791 -AAAAAAAATTCGAATTTTTTTTCAAAAATTTTTTTTTTCCTCTTTA
64 AAAAAAAAATTC-AAATTTTTTTCAAAAA-AAAATTTTTGCTCTCTA
* * *
42353837 AAAATACGAGTTTT-AAAAAAAAATTTGGTGCTGGCCTATTAATTGCCGGCACCCAGTACAAC-A
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* *
42353900 AAAAAAATT-GAATTTTTTTCAAAAAAAAATTTTT-CTCTAT-
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
* *
42353940 AAAATACGACTTTT-AAAAAAAAA-TT-G-G-T-G-CTGAC-A-GGCCGGCACCCAGTACAACAA
1 AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
***** *
42353996 AAAAAAATTCAAATTTTTTTC-AAATTTTTTTTTTGCTTTCTA
66 AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
42354038 AAAATACGAGTTTT-AAAAAAAAATTTGG
1 AAAATACGAGTTTTAAAAAAAAAATTTGG
42354066 GTGCAAAAAA
Statistics
Matches: 846, Mismatches: 101, Indels: 77
0.83 0.10 0.08
Matches are distributed among these distances:
95 18 0.02
96 19 0.02
97 16 0.02
98 23 0.03
99 3 0.00
100 2 0.00
101 1 0.00
102 2 0.00
103 49 0.06
104 52 0.06
105 50 0.06
106 129 0.15
107 100 0.12
108 133 0.16
109 85 0.10
110 86 0.10
111 77 0.09
112 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (108 bp):
AAAATACGAGTTTTAAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
AAAAAAATTCAAATTTTTTTCAAAAAAAAATTTTTGCTCTCTA
Found at i:42354209 original size:109 final size:110
Alignment explanation
Indices: 42354097--42354666 Score: 626
Period size: 109 Copynumber: 5.2 Consensus size: 110
42354087 TGTTTTCAAA
* *
42354097 TTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTATTGAAAAAAAATTTGAATTTT
1 TTTTTTTTTAAAACTCGTATTTTTAAAGAGC-AAAAAAAAATTATTGAAAAAAAATTCGAATTTT
** *
42354162 TTTTGTCATGCTGGGTGCCGACCATTGACAGGCCAGCACCC-AAAT
65 TTTTGTTGTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAAT
* *
42354207 TTTTTTTTTAAAACTCGTATTTTTAGAGAGTAAAAAAAAA--ATTGAAAAAAAATTCGAATTTTT
1 TTTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAAATTATTGAAAAAAAATTCGAATTTTT
* *
42354270 TTTGTTGTACTGGGTGTCGACCATTGACAGACCAGCACCCAAAAT
66 TTTGTTGTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAAT
* * ** * **
42354315 TTTTTTTTTTAAACTAGT-TTTTTTTAGAGCAAAAAAAAATTTTTGAAAAAAAATTATAATTTTT
1 TTTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAAATTATTGAAAAAAAATTCGAATTTTT
* ** *
42354379 TTTGTTGTATTGGGTG-TTAGCCATTGACAGGCTAGCACCCAAAAT
66 TTTGTTGTACTGGGTGCCGA-CCATTGACAGGCCAGCACCCAAAAT
* * * *
42354424 TTTTTTTTTTAAAGTTGTATTTTTAAAGAGC-AAAAAAAA--ATTGAAAAAAAATTAGAATTTTT
1 TTTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAAATTATTGAAAAAAAATTCGAA-TTTT
* *
42354486 TTTTGTTGTACTGGGTGCCGAGCATTTACAGGCCTA-CACCCAAAA-
65 TTTTGTTGTACTGGGTGCCGACCATTGACAGGCC-AGCACCCAAAAT
* * *
42354531 -TTTTTTTT--AACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTTGAAAAAAAAAATCGAATT
1 TTTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAA--ATTATTG-AAAAAAAATTCGAA-T
* * * ** * *
42354593 TTTTTTGTGTTGTGCTAGGTACCGGTCATTGACAGGCCAGTACCCAAAAAA
62 TTTTTT-TGTTGTACTGGGTGCCGACCATTGACAGGCCAGCACCC-AAAAT
*
42354644 TTTTTTTTTGAAACTCGTATTTT
1 TTTTTTTTTAAAACTCGTATTTT
42354667 GTATACCAAT
Statistics
Matches: 394, Mismatches: 45, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
104 18 0.05
105 7 0.02
106 8 0.02
107 91 0.23
108 60 0.15
109 96 0.24
110 61 0.15
111 29 0.07
112 4 0.01
114 8 0.02
116 12 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.39
Consensus pattern (110 bp):
TTTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAAATTATTGAAAAAAAATTCGAATTTTT
TTTGTTGTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAAT
Found at i:42354317 original size:217 final size:217
Alignment explanation
Indices: 42354094--42354666 Score: 678
Period size: 217 Copynumber: 2.6 Consensus size: 217
42354084 ATTTGTTTTC
* *
42354094 AAATTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTATTGAAAAAAAATTTGAAT
1 AAATTTTTTTTT-AAACTCGTATTTTTAAAGAGCAAAAAAAAAATTTTTGAAAAAAAATTTGAAT
**
42354159 TTTTTTTGTCATGCTGGGTGCCGACCATTGACAGGCCAGCACCC-AAATTTTTTTTTTAAAACTC
65 TTTTTTTGTTGTGCTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAACTC
* * *
42354223 GTATTTTTAGAGAGTAAAAAAAAAATTGAAAAAAAATTCGAA-TTTTTTTTGTTGTACTGGGTGT
130 GTATTTTTAAAGAG-AAAAAAAAAATTGAAAAAAAATTAGAATTTTTTTTTGTTGTACTGGGTGC
42354287 CGACCATTGACAGACC-AGCACCCA
194 CGACCATTGACAGACCTA-CACCCA
* **
42354311 AAATTTTTTTTTTTAAACTAGT-TTTTTTTAGAGC-AAAAAAAAATTTTTGAAAAAAAATTAT-A
1 AAA--TTTTTTTTTAAACTCGTATTTTTAAAGAGCAAAAAAAAAATTTTTGAAAAAAAATT-TGA
** ** * *
42354373 ATTTTTTTTGTTGTATTGGGTG-TTAGCCATTGACAGGCTAGCACCCAAAATTTTTTTTTTTAAA
63 ATTTTTTTTGTTGTGCTGGGTGCCGA-CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAA
* * *
42354437 GTTGTATTTTTAAAGAGCAAAAAAAAATTGAAAAAAAATTAGAATTTTTTTTTGTTGTACTGGGT
127 CTCGTATTTTTAAAGAGAAAAAAAAAATTGAAAAAAAATTAGAATTTTTTTTTGTTGTACTGGGT
* * *
42354502 GCCGAGCATTTACAGGCCTACACCCA
192 GCCGACCATTGACAGACCTACACCCA
** * *
42354528 AAA-TTTTTTTT-AACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTTGAAAAAAAAAATCGAA
1 AAATTTTTTTTTAAACTCGTATTTTTAAAGAGCAAAAAAAA-AATTTTTG-AAAAAAAATTTGAA
* * ** * * *
42354591 TTTTTTTTGTGTTGTGCTAGGTACCGGTCATTGACAGGCCAGTACCCAAAAAATTTTTTTTTGAA
64 -TTTTTTT-TGTTGTGCTGGGTGCCGACCATTGACAGGCCAGCACCC-AAAATTTTTTTTTTAAA
42354656 ACTCGTATTTT
126 ACTCGTATTTT
42354667 GTATACCAAT
Statistics
Matches: 298, Mismatches: 42, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
213 6 0.02
214 18 0.06
215 8 0.03
216 93 0.31
217 98 0.33
218 15 0.05
219 36 0.12
220 24 0.08
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (217 bp):
AAATTTTTTTTTAAACTCGTATTTTTAAAGAGCAAAAAAAAAATTTTTGAAAAAAAATTTGAATT
TTTTTTGTTGTGCTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAACTCG
TATTTTTAAAGAGAAAAAAAAAATTGAAAAAAAATTAGAATTTTTTTTTGTTGTACTGGGTGCCG
ACCATTGACAGACCTACACCCA
Found at i:42357843 original size:109 final size:108
Alignment explanation
Indices: 42357453--42358467 Score: 1070
Period size: 109 Copynumber: 9.3 Consensus size: 108
42357443 ATTGGTATAC
* *
42357453 AAAATACGAGTTT-AAAAAAAAA--TTGGGTGCTAGCCTGTCAATGGCTGGCACCCAGTACAACA
1 AAAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC-
*
42357515 AAAAACAAAATTCG-ATTTTTTTTCAAAAACAATTTTTTTGCTCTTTA
65 -AAAA-AAAATTCGAATTTTTTTTCAAAAA-AA-TTTTTTGCTCTCTA
* * *** * * *
42357562 AAAAAACAAG-TTAAAAAAATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAATAAAACA
1 AAAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC-
* *** *
42357626 AAAAAAAATTC-AAATTTTTTTC-AAATTTTTTTTTACTCTCTA
65 AAAAAAAATTCGAATTTTTTTTCAAAAAAATTTTTTGCTCTCTA
* * ** *
42357668 AAAATACAAGTTTTAAAAAAAAA-TTT-GGTGCTGGCCTGTCAATGGCTTGCACCTAGTACAACA
1 AAAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
* ** *
42357731 AAAAAAA-TCGAATTATTTTTCAAAAACAAAATTTTGTTCTCTA
66 AAAAAAATTCGAATTTTTTTTCAAAAA-AATTTTTTGCTCTCTA
* *
42357774 AAAATACGAGCTTTAAAAAAAAAATTTTGGATGCTGGCCTGTCACTGGCCGGCACCCAGTACAAC
1 AAAATACGAG-TTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
42357839 AAAAAAAATTCGAATTTTTTTTCAAAAAAACTTTTTTTGCTCTCTA
65 AAAAAAAATTCGAATTTTTTTTCAAAAAAA--TTTTTTGCTCTCTA
42357885 AAAATACGAGTTT-AAAAAAAAATTTTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
1 AAAATACGAGTTTAAAAAAAAAATTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
* * *
42357949 AAAAAAAATT-GAA-TTCTTTTAAAAAAAATTATTTGCTCTCTA
65 AAAAAAAATTCGAATTTTTTTTCAAAAAAATTTTTTGCTCTCTA
* * *
42357991 AAAATATGAGTTTAAAAAAACAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCACTCCAA
1 AAAATACGAGTTT-AAAAAA-AAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-A
* * *
42358056 AAAAAAAAAAGTC-AATTTTTTTTACAAAAAATATTTTTTTTGCTCTCTG
63 ACAAAAAAAATTCGAATTTTTTTT-CAAAAAA-A--TTTTTTGCTCTCTA
** * **
42358105 AAAATACTTGTTTTAAAAAAAAACTTTTTTTTGGGTGCT-GCCTGTCAATGGTTGGCACCCAGTA
1 AAAATACGAG-TTTAAAAAAAAA----ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
*
42358169 CAACAAAAAAAATTCGAATTTTTTTTCAAAAAAGTTTTTTTTGCTCTCTA
61 CAACAAAAAAAATTCGAATTTTTTTTCAAAAAA--ATTTTTTGCTCTCTA
* * * * *
42358219 AAAATACGAGTTTTAAAAAAAAA--TTAGGTGTTGGCCTGTTAATGGCTGGCACCCAGTACAACA
1 AAAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC-
* *
42358282 AAAAAAAACTTCAAATTTTTTTT-AAAAAATTTTTTTTTGCTCTCTA
65 AAAAAAAA-TTCGAATTTTTTTTCAAAAAA--ATTTTTTGCTCTCTA
* * *
42358328 AAAATACGAGTTTTAAAAAAAAAA-TTTGGGTGCTGGCTTGTCAATGGGCAGCACCCAGTAC-A-
1 AAAATACGAG-TTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
42358390 AAAAAAAATTC-AA-TTTTTTTCAAAAAAAATTTTTTTGCTCTCTA
65 AAAAAAAATTCGAATTTTTTTTC-AAAAAAA-TTTTTTGCTCTCTA
* *
42358434 AAAATACGAATTTTCAAAAAAAAAA-ATTGGGTGC
1 AAAATACG-AGTTT-AAAAAAAAAATTTTGGGTGC
42358468 AAAAAAAAAG
Statistics
Matches: 771, Mismatches: 93, Indels: 86
0.81 0.10 0.09
Matches are distributed among these distances:
103 2 0.00
104 17 0.02
105 41 0.05
106 95 0.12
107 55 0.07
108 93 0.12
109 148 0.19
110 103 0.13
111 90 0.12
112 1 0.00
113 14 0.02
114 46 0.06
115 22 0.03
116 33 0.04
117 11 0.01
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (108 bp):
AAAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
AAAAAAATTCGAATTTTTTTTCAAAAAAATTTTTTGCTCTCTA
Found at i:42358615 original size:112 final size:111
Alignment explanation
Indices: 42358499--42358743 Score: 352
Period size: 109 Copynumber: 2.2 Consensus size: 111
42358489 TTTCAAAATG
* * **
42358499 TTTTTTTAAACTGGTATTTTTAGAGAGCAAAAA-AATTTTTTTTGAAAAAAAGTTCGAATTTTTT
1 TTTTTTTAAACTCGTATTTTTAGAGAGCAAAAAGAA--ATTTTT-AAAAAAAAATCGAA-TTTTT
*
42358563 TTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCA-CCC-AAATTTTT
62 TTTGTCGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCCAAAATTTTT
* *
42358611 TTTTTTAAAACTCGTATTTTTAGGGAGCAAAAAGAAATTTTTAAAAAAAAATCGAATTTTTTTTG
1 TTTTTTTAAACTCGTATTTTTAGAGAGCAAAAAGAAATTTTTAAAAAAAAATCGAATTTTTTTTG
*
42358676 TCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAATTTTT
66 TCGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCCAAAATTTTT
42358722 TTTTTTTAAACTCGTATGTTTT
1 TTTTTTTAAACTCGTAT-TTTT
42358744 GTAACGTCCC
Statistics
Matches: 120, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
109 40 0.33
110 15 0.12
111 29 0.24
112 34 0.28
113 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (111 bp):
TTTTTTTAAACTCGTATTTTTAGAGAGCAAAAAGAAATTTTTAAAAAAAAATCGAATTTTTTTTG
TCGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCCAAAATTTTT
Found at i:42359395 original size:18 final size:18
Alignment explanation
Indices: 42359374--42359416 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
42359364 GAACAATTAT
* *
42359374 TTATTCAGTAACACTCAG
1 TTATTCAGTAACAATCAA
* *
42359392 TTATTCGGTAATAATCAA
1 TTATTCAGTAACAATCAA
42359410 TTATTCA
1 TTATTCA
42359417 ATAATAACCG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:42359483 original size:18 final size:18
Alignment explanation
Indices: 42359454--42359627 Score: 140
Period size: 18 Copynumber: 9.6 Consensus size: 18
42359444 AATTGATCGG
*
42359454 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
42359472 TTATTCAATAACAATTAA
1 TTATTCAGTAACAGTCAA
42359490 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
42359508 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
42359527 TTATTCAGTAA-TGATAAA
1 TTATTCAGTAACAG-TCAA
* * *
42359545 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
42359563 TTATTCAGTAATAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
42359582 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
42359599 TTA-TCTGATAACAGTCAA
1 TTATTCAG-TAACAGTCAA
42359617 TTATTCAGTAA
1 TTATTCAGTAA
42359628 TAATCAGTTA
Statistics
Matches: 121, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
17 6 0.05
18 96 0.79
19 19 0.16
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:42359590 original size:36 final size:36
Alignment explanation
Indices: 42359453--42359639 Score: 157
Period size: 36 Copynumber: 5.2 Consensus size: 36
42359443 CAATTGATCG
* * * * *
42359453 GTTATCCAGTAACAGTCAATTATTCAATAACAATTAA
1 GTTATTCAGTAATAGTCAATTATTCAGTAATAA-TCA
* * *
42359490 GTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCA
1 GTTATTCAGTAATAGTCAATT-ATTCAGTAATAATCA
* *
42359526 GTTATTCAGTAAT-GATAAATTATTCAGTAATATTCA
1 GTTATTCAGTAATAG-TCAATTATTCAGTAATAATCA
* * *
42359562 GTTATTCAGTAATAGTCTAA-TATCCAGTAACAGTCA
1 GTTATTCAGTAATAGTC-AATTATTCAGTAATAATCA
* * *
42359598 ATTA-TCTGATAACAGTCAATTATTCAGTAATAATCA
1 GTTATTCAG-TAATAGTCAATTATTCAGTAATAATCA
42359634 GTTATT
1 GTTATT
42359640 TTATACCCTT
Statistics
Matches: 122, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
35 6 0.05
36 83 0.68
37 33 0.27
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
GTTATTCAGTAATAGTCAATTATTCAGTAATAATCA
Found at i:42359871 original size:45 final size:45
Alignment explanation
Indices: 42359822--42360030 Score: 234
Period size: 45 Copynumber: 5.0 Consensus size: 45
42359812 AGTACGGTAT
* *
42359822 CAATATCCGACACACAAAGTGTCGAATCGGTAACGGTAACAGTAA
1 CAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
42359867 CAATATTC--CACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
1 CAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
* *
42359910 CAATATTCGACA-ATC---G-G--TAA-CGGTAACAGTAAC----A
1 CAATATTCGACACA-CAAAGTGCCGAATCGGTAACGGTAACAGTAA
42359944 --ATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
1 CAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
* * *
42359987 CAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAGCAGTA
1 CAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTA
42360031 GCGGTAACAG
Statistics
Matches: 138, Mismatches: 9, Indels: 34
0.76 0.05 0.19
Matches are distributed among these distances:
32 11 0.08
33 1 0.01
34 1 0.01
35 1 0.01
36 1 0.01
38 14 0.10
39 14 0.10
41 1 0.01
42 1 0.01
43 43 0.31
44 1 0.01
45 49 0.36
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (45 bp):
CAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
Found at i:42359925 original size:32 final size:32
Alignment explanation
Indices: 42359889--42359953 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
42359879 CAAAGTGCCG
42359889 AATCGGTAACGGTAACAGTAACAATATTCGAC
1 AATCGGTAACGGTAACAGTAACAATATTCGAC
42359921 AATCGGTAACGGTAACAGTAACAATATTCGAC
1 AATCGGTAACGGTAACAGTAACAATATTCGAC
42359953 A
1 A
42359954 CACAAAGTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (32 bp):
AATCGGTAACGGTAACAGTAACAATATTCGAC
Found at i:42359935 original size:75 final size:76
Alignment explanation
Indices: 42359846--42359994 Score: 282
Period size: 77 Copynumber: 2.0 Consensus size: 76
42359836 CAAAGTGTCG
42359846 AATCGGTAACGGTAACAGTAACAATATTC-CACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
1 AATCGGTAACGGTAACAGTAACAATATTCACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
42359910 CAATATTCGAC
66 CAATATTCGAC
42359921 AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACAGTA
1 AATCGGTAACGGTAACAGTAACAATATTC-ACACACAAAGTGCCGAATCGGTAACGGTAACAGTA
42359986 ACAATATTC
65 ACAATATTC
42359995 AACACACAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
75 29 0.40
77 43 0.60
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (76 bp):
AATCGGTAACGGTAACAGTAACAATATTCACACACAAAGTGCCGAATCGGTAACGGTAACAGTAA
CAATATTCGAC
Found at i:42361737 original size:10 final size:10
Alignment explanation
Indices: 42361722--42361754 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
42361712 TCCTTCTCTG
42361722 TTTCTTTTTC
1 TTTCTTTTTC
42361732 TTTCTTTTTC
1 TTTCTTTTTC
42361742 TTT-TCTTTTC
1 TTTCT-TTTTC
42361752 TTT
1 TTT
42361755 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 1 0.05
10 21 0.95
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:42361743 original size:16 final size:16
Alignment explanation
Indices: 42361722--42361755 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
42361712 TCCTTCTCTG
42361722 TTTCTTTT-TCTTTCTT
1 TTTCTTTTCT-TTTCTT
42361738 TTTCTTTTCTTTTCTT
1 TTTCTTTTCTTTTCTT
42361754 TT
1 TT
42361756 ATATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTT
Found at i:42362809 original size:110 final size:109
Alignment explanation
Indices: 42362445--42362854 Score: 581
Period size: 109 Copynumber: 3.8 Consensus size: 109
42362435 GGGTCATTAC
* *
42362445 ATTTTTAGAGAGCAAAAAAAAA-ATTTG-AAAAAAATTCAAATTTTTTTTTGTTGTACTGGGTGC
1 ATTTTTAGAGAGCAAAAAAAAATTTTTGAAAAAAAATTC-GATTTTTTTTTGTTGTACTGGGTGC
* * *
42362508 CGGCCATTGACAGGCCAGCA-CC-TATTTTTTTTTTAAAACCCGT
65 CAGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTAAAACTCGT
*** *
42362551 ATTTTTAGAGAG----AAATTTTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGTC
1 ATTTTTAGAGAGCAAAAAAAAATTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGCC
42362612 AGCCATTGACAGGCCAGCACCCCAAA-TTTTTTTTTAAAACTCGT
66 AGCCATTGACAGGCCAGCA-CCCAAATTTTTTTTTTAAAACTCGT
*
42362656 ATTTTTAGAGAGCAAAAAAAAATTTTTGAAAAAAAATTCGA-TTTTTTTTGTTGTACTGGGTGTC
1 ATTTTTAGAGAGCAAAAAAAAATTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGCC
*
42362720 AGCCATTAACAGGCCAGCACCCAAATTTTTTTTTTTAAAACTCGT
66 AGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTTTAAAACTCGT
* *
42362765 ATTTTTAGAGAGCAAAAAAAAATTTTTTGAAAAAAAATTTGA-TTTTTTTTGTTGTATTGGGTGC
1 ATTTTTAGAGAGCAAAAAAAAA-TTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGC
*
42362829 CGGCCATTGACAGGCCAGCACCCAAA
65 CAGCCATTGACAGGCCAGCACCCAAA
42362855 AAAAATTTTT
Statistics
Matches: 274, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
102 3 0.01
103 46 0.17
104 10 0.04
105 31 0.11
106 13 0.05
107 6 0.02
108 41 0.15
109 62 0.23
110 62 0.23
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (109 bp):
ATTTTTAGAGAGCAAAAAAAAATTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGCC
AGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTAAAACTCGT
Found at i:42362898 original size:72 final size:73
Alignment explanation
Indices: 42362779--42362917 Score: 235
Period size: 72 Copynumber: 1.9 Consensus size: 73
42362769 TTAGAGAGCA
* * * *
42362779 AAAAAAAATTTTTTGAAAAAAAATTTGATTTTTTTTGTTGTATTGGGTGCCGGCCATTGACAGGC
1 AAAAAAAATTTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGGC
42362844 CAGCACCC
66 CAGCACCC
42362852 AAAAAAAA-TTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGGC
1 AAAAAAAATTTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGGC
42362916 CA
66 CA
42362918 AAACTAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 54 0.87
73 8 0.13
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAAAAATTTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGGC
CAGCACCC
Found at i:42362928 original size:72 final size:72
Alignment explanation
Indices: 42362777--42362938 Score: 225
Period size: 72 Copynumber: 2.2 Consensus size: 72
42362767 TTTTAGAGAG
* * * *
42362777 CAAAAAAAAATTTTTTGAAAAAAAATTTGATTTTTTTTGTTGTATTGGGTGCCGGCCATTGACAG
1 CAAAAAAAAA-TTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAG
**
42362842 GCCAGCAC
65 GCCAAAAC
*
42362850 CCAAAAAAAATTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGG
1 CAAAAAAAAATTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGG
42362915 CCAAAAC
66 CCAAAAC
*
42362922 TAAAAAAATTAATTTTT
1 CAAAAAAA--AATTTTT
42362939 TAAAGCCTGA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
72 62 0.79
73 9 0.12
74 7 0.09
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (72 bp):
CAAAAAAAAATTTTTGAAAAAAAAATCGATTTTTTTTATTGTACTGGGTGCCGGCCATTGACAGG
CCAAAAC
Found at i:42363342 original size:19 final size:21
Alignment explanation
Indices: 42363295--42363334 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
42363285 TTAAAAATTA
42363295 AAAATATTTTTATATTTTTTT
1 AAAATATTTTTATATTTTTTT
42363316 AAAATATTTTT-TATTTTTT
1 AAAATATTTTTATATTTTTT
42363335 GAATTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
AAAATATTTTTATATTTTTTT
Found at i:42371017 original size:54 final size:54
Alignment explanation
Indices: 42370941--42371073 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 54
42370931 ATAGCGACCG
* * * * * *
42370941 TATACTTATACGATTTTAAGAATTTTACAATTCACCGATTTAAGATCGCGACCT
1 TATACTTATAAGATTTTCAGAATCTTACAATTCACCAATTTAAGATCGCAACCA
* * * **
42370995 TTTATTTATAAGATTTTCAGAATCTTACAGTTTGCCAATTTAAGATCGCAACCA
1 TATACTTATAAGATTTTCAGAATCTTACAATTCACCAATTTAAGATCGCAACCA
42371049 TATACTTATAAGATTTTC-GAATCTT
1 TATACTTATAAGATTTTCAGAATCTT
42371074 TCGGTTTGCG
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 7 0.11
54 59 0.89
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (54 bp):
TATACTTATAAGATTTTCAGAATCTTACAATTCACCAATTTAAGATCGCAACCA
Found at i:42375067 original size:16 final size:17
Alignment explanation
Indices: 42375043--42375078 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
42375033 TTTAGCTTCG
42375043 TTTCACATTAT-TTTTA
1 TTTCACATTATCTTTTA
*
42375059 TTTCTCATTATCTTTTA
1 TTTCACATTATCTTTTA
42375076 TTT
1 TTT
42375079 ATTATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCACATTATCTTTTA
Found at i:42383129 original size:14 final size:16
Alignment explanation
Indices: 42383099--42383131 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
42383089 TATACATATC
42383099 ATTATAATTATAAAAA
1 ATTATAATTATAAAAA
42383115 ATTAT-ATTA-AAAAA
1 ATTATAATTATAAAAA
42383129 ATT
1 ATT
42383132 TCGCCTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAATTATAAAAA
Found at i:42385140 original size:23 final size:23
Alignment explanation
Indices: 42385114--42385158 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
42385104 TATACTAAAA
**
42385114 ATATATATTTTTTATTCTTAATC
1 ATATATACATTTTATTCTTAATC
* *
42385137 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTCTTAAT
42385159 TTTAATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATACATTTTATTCTTAATC
Found at i:42386364 original size:20 final size:20
Alignment explanation
Indices: 42386339--42386381 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
42386329 ATCTTTTCCT
42386339 TTATAGAAATTGTTTGAGCA
1 TTATAGAAATTGTTTGAGCA
*
42386359 TTATAGCAATTGTTTGAGCA
1 TTATAGAAATTGTTTGAGCA
42386379 TTA
1 TTA
42386382 ACAACTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (20 bp):
TTATAGAAATTGTTTGAGCA
Found at i:42386850 original size:20 final size:20
Alignment explanation
Indices: 42386825--42386865 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
42386815 AAGGGCACAC
* *
42386825 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCCTGGAACAT
42386845 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
42386865 G
1 G
42386866 GTCATGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:42396359 original size:37 final size:38
Alignment explanation
Indices: 42396291--42396367 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 38
42396281 TCTATGAGTG
42396291 TTTACATGCACCACTCTAGATCACTCACTGGTTTAGCT
1 TTTACATGCACCACTCTAGATCACTCACTGGTTTAGCT
* *
42396329 TTTACATGCAGCACTC-CGATCACTCACTGGTTTAGCT
1 TTTACATGCACCACTCTAGATCACTCACTGGTTTAGCT
42396366 TT
1 TT
42396368 CACTCGATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
37 22 0.59
38 15 0.41
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (38 bp):
TTTACATGCACCACTCTAGATCACTCACTGGTTTAGCT
Found at i:42396418 original size:28 final size:28
Alignment explanation
Indices: 42396386--42396444 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
42396376 TACTGAAAGT
42396386 TTAAACGAGCTTCTCCTTGCCTTTCGCC
1 TTAAACGAGCTTCTCCTTGCCTTTCGCC
*
42396414 TTAAACGAGCTTCTCCTTTCCTTTCGCC
1 TTAAACGAGCTTCTCCTTGCCTTTCGCC
42396442 TTA
1 TTA
42396445 CTCATAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.15, C:0.34, G:0.12, T:0.39
Consensus pattern (28 bp):
TTAAACGAGCTTCTCCTTGCCTTTCGCC
Found at i:42406410 original size:15 final size:15
Alignment explanation
Indices: 42406392--42406434 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42406382 CCCAAAAATA
42406392 ATTATAAAAAATAAT
1 ATTATAAAAAATAAT
*
42406407 ATTAT-TAAAATAAAT
1 ATTATAAAAAAT-AAT
*
42406422 AATATAAAAAATA
1 ATTATAAAAAATA
42406435 TGTATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTATAAAAAATAAT
Found at i:42406801 original size:38 final size:38
Alignment explanation
Indices: 42406757--42406859 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 38
42406747 TATTTAATTA
* *
42406757 ATTTTTTAAAATTTTTAAAATTATAAATATA-TATTTTAT
1 ATTTTTTAAAA-TTTTAAAATTTTAAAAATAGT-TTTTAT
*
42406796 ATTTTTTTAAAATTTT-AATTTTTAAAAATAGTTTTTAT
1 A-TTTTTTAAAATTTTAAAATTTTAAAAATAGTTTTTAT
*
42406834 A-TTTTT-GAATTTTAAAATTTTAAAAA
1 ATTTTTTAAAATTTTAAAATTTTAAAAA
42406860 ATTAATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
35 6 0.11
36 16 0.29
38 18 0.32
39 6 0.11
40 10 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (38 bp):
ATTTTTTAAAATTTTAAAATTTTAAAAATAGTTTTTAT
Found at i:42406825 original size:40 final size:38
Alignment explanation
Indices: 42406758--42406839 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 38
42406748 ATTTAATTAA
*
42406758 TTTTTTAAAATTTTTAAAATTATAAATATATATTTTATAT
1 TTTTTTAAAATTTTTAAAATTAAAAATA-AT-TTTTATAT
** *
42406798 TTTTTTAAAA-TTTTAATTTTTAAAAATAGTTTTTATAT
1 TTTTTTAAAATTTTTAA-AATTAAAAATAATTTTTATAT
42406836 TTTT
1 TTTT
42406840 GAATTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (38 bp):
TTTTTTAAAATTTTTAAAATTAAAAATAATTTTTATAT
Found at i:42407957 original size:37 final size:37
Alignment explanation
Indices: 42407907--42407977 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
42407897 TCATTCTCAT
*
42407907 CTCCAATCCTTCTAATGGTGGGATTGGGTGGGTACTA
1 CTCCAATCCTTCTAATGGTGGGATTGGATGGGTACTA
* *
42407944 CTCCAATCTTTCTAATGGTGGGTTTGGATGGGTA
1 CTCCAATCCTTCTAATGGTGGGATTGGATGGGTA
42407978 GTACGTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (37 bp):
CTCCAATCCTTCTAATGGTGGGATTGGATGGGTACTA
Found at i:42408889 original size:27 final size:28
Alignment explanation
Indices: 42408859--42408930 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
42408849 AAAAAAAAGA
* *
42408859 ATTTATTTTTAAAATTTT-AAAGAGTTT
1 ATTTATTTTTAAAATTTTCAAAGAATAT
* *
42408886 ATTT-TTTTCATAAATTTTCAAATAATAT
1 ATTTATTTTTA-AAATTTTCAAAGAATAT
*
42408914 A-TTATTTTTAAATTTTT
1 ATTTATTTTTAAAATTTT
42408931 GTTTAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
26 5 0.14
27 19 0.53
28 12 0.33
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTATTTTTAAAATTTTCAAAGAATAT
Found at i:42414443 original size:30 final size:29
Alignment explanation
Indices: 42414385--42414445 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
42414375 TTTTTTTGAG
**
42414385 TTTAGTTATTAATTTTTTTTAAAGTTAAA
1 TTTAGTTATTAATTTTTTAAAAAGTTAAA
42414414 TTTAGTTATTAA-TTTTTAAAATGAGTTAAA
1 TTTAGTTATTAATTTTTTAAAA--AGTTAAA
42414444 TT
1 TT
42414446 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 12 0.43
30 9 0.32
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (29 bp):
TTTAGTTATTAATTTTTTAAAAAGTTAAA
Found at i:42424497 original size:18 final size:19
Alignment explanation
Indices: 42424476--42424543 Score: 88
Period size: 18 Copynumber: 3.7 Consensus size: 19
42424466 CCAACTACTA
*
42424476 TATACATGAATAGTACT-G
1 TATACGTGAATAGTACTCG
*
42424494 TATACGTAAATAGTA-TCG
1 TATACGTGAATAGTACTCG
*
42424512 TATACGTGAATAGT-GTCG
1 TATACGTGAATAGTACTCG
42424530 TATACGTGAATAGT
1 TATACGTGAATAGT
42424544 GCCATAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
17 1 0.02
18 44 0.98
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (19 bp):
TATACGTGAATAGTACTCG
Found at i:42428522 original size:20 final size:20
Alignment explanation
Indices: 42428497--42428546 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
42428487 TGGCTTAAAA
42428497 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
42428517 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
42428534 GTGGTAGTGGATT
1 TTGGTAGTGGATT
42428547 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:42433161 original size:20 final size:20
Alignment explanation
Indices: 42433136--42433185 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
42433126 TGGCTTAAAA
42433136 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
42433156 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
42433173 GTGGTAGTGGATT
1 TTGGTAGTGGATT
42433186 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:42436108 original size:15 final size:16
Alignment explanation
Indices: 42436088--42436117 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42436078 GATTCACCTC
42436088 TGCATAAAAT-TATAA
1 TGCATAAAATATATAA
42436103 TGCATAAAATATATA
1 TGCATAAAATATATA
42436118 TATTTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
TGCATAAAATATATAA
Found at i:42438433 original size:17 final size:17
Alignment explanation
Indices: 42438411--42438444 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42438401 ATCCACTAAT
*
42438411 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
42438428 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
42438445 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:42441969 original size:17 final size:17
Alignment explanation
Indices: 42441947--42441980 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42441937 ATCCACTAAT
*
42441947 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
42441964 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
42441981 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:42446657 original size:50 final size:50
Alignment explanation
Indices: 42446582--42446808 Score: 373
Period size: 50 Copynumber: 4.5 Consensus size: 50
42446572 CCATGGCAAC
* *
42446582 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
42446632 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
42446682 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
42446732 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
42446783 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
42446809 CTGATCAATG
Statistics
Matches: 168, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
50 145 0.86
51 23 0.14
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:42446826 original size:31 final size:31
Alignment explanation
Indices: 42446788--42446939 Score: 304
Period size: 31 Copynumber: 4.9 Consensus size: 31
42446778 ATGGCAAGTA
42446788 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
42446819 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
42446850 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
42446881 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
42446912 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
42446940 TCGGCTACTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 121 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:42446961 original size:46 final size:46
Alignment explanation
Indices: 42446894--42446985 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
42446884 AGTGGTAGCT
* *
42446894 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
42446940 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
42446986 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:42446989 original size:31 final size:31
Alignment explanation
Indices: 42446941--42447009 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
42446931 ACCTGATCAT
* * *
42446941 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
42446972 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
42447003 CGGCTAC
1 CGGCTAC
42447010 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:42447001 original size:77 final size:77
Alignment explanation
Indices: 42446863--42447009 Score: 222
Period size: 77 Copynumber: 1.9 Consensus size: 77
42446853 AGTGGTAGCT
* * *
42446863 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAGTGGTAGCTTCG
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCAATGAAAAGTGATAGCTTCG
42446928 GCTACCTGATCA
66 GCTACCTGATCA
* * * * *
42446940 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCAGTGAATAGTGATAGCTTCG
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCAATGAAAAGTGATAGCTTCG
42447005 GCTAC
66 GCTAC
42447010 AAGTGACAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (77 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCAATGAAAAGTGATAGCTTCG
GCTACCTGATCA
Found at i:42450671 original size:30 final size:30
Alignment explanation
Indices: 42450635--42450696 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
42450625 GTCTTCCAAA
*
42450635 TAAGTTCCGTGTTATATCAACTCGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
* *
42450665 TAAGTTCTGTGCTATATCAACTGGTGAATT
1 TAAGTTCCGTGCTATATCAACTCGTGAATT
42450695 TA
1 TA
42450697 GATCATGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (30 bp):
TAAGTTCCGTGCTATATCAACTCGTGAATT
Found at i:42465744 original size:44 final size:43
Alignment explanation
Indices: 42465690--42465773 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
42465680 TAATAAGAAT
42465690 AAAATTAATTACT-ATTCAAATAATTAATATTAAAAATTATATA
1 AAAATTAATTA-TGATTCAAATAATTAATATTAAAAATTATATA
* * *
42465733 AAAATATAATTATGGTTTAAATAATTAATTTTAAAAATTAT
1 AAAAT-TAATTATGATTCAAATAATTAATATTAAAAATTAT
42465774 CAAGAACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 6 0.17
44 30 0.83
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (43 bp):
AAAATTAATTATGATTCAAATAATTAATATTAAAAATTATATA
Found at i:42469296 original size:21 final size:19
Alignment explanation
Indices: 42469262--42469302 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
42469252 TATTTTAAAT
*
42469262 AATTAAGTTTATTTTCTTTA
1 AATTAAGGTTATTTT-TTTA
42469282 AATTAAGAGTTATTTTTTTA
1 AATTAAG-GTTATTTTTTTA
42469302 A
1 A
42469303 TTCCATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
AATTAAGGTTATTTTTTTA
Found at i:42493249 original size:31 final size:32
Alignment explanation
Indices: 42493211--42493273 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
42493201 CCCTACACAA
42493211 CCAGCCATGTTACTT-CCCCGTGTTTTGTTGT
1 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
42493242 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
1 CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
42493274 TCAACAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.11, C:0.29, G:0.19, T:0.41
Consensus pattern (32 bp):
CCAGCCATGTTACTTACCCCGTGTTTTGTTGT
Found at i:42493425 original size:150 final size:151
Alignment explanation
Indices: 42493236--42493541 Score: 497
Period size: 150 Copynumber: 2.0 Consensus size: 151
42493226 CCCCGTGTTT
*
42493236 TGTTGTCCAGCCATGTTACTTACCCCGTGTTTTGTTGTTCAACAAAGCTCACAGTATAATATGTT
1 TGTTGTCCAGCCATGTTACTTACCCCGTGTTTTGTTGTTCAACAAAGCTCACAGTATAATATGTC
* * * * *
42493301 TAACATTGTTGATCCCCAGCTGTAAATACCAGTACGATGGAGATCCTCCAATAGAGGCAGGTACT
66 TAACACTGTTGATCCCCAACTGTAAATACCAGTACGATGGAGACCCTCCAATAGAGGAAAGTACT
*
42493366 TTAAGTAAATACTATTAGATG
131 TTAAGTAAATACTATTAGACG
* *
42493387 TGTTGTCC-GGCATGTTACTTACCCCGTGTTTTGTTGTTCGACAAAGCTCACAGTATAATATGTC
1 TGTTGTCCAGCCATGTTACTTACCCCGTGTTTTGTTGTTCAACAAAGCTCACAGTATAATATGTC
* * *
42493451 TAACACTGTTGCTCCCCAACTGTAAGTACCGGTACGATGGAGACCCTCCAATAGAGGAAAGTACT
66 TAACACTGTTGATCCCCAACTGTAAATACCAGTACGATGGAGACCCTCCAATAGAGGAAAGTACT
42493516 TTAAGTAAATACTATTAGACG
131 TTAAGTAAATACTATTAGACG
42493537 TGTTG
1 TGTTG
42493542 CCCGACATAA
Statistics
Matches: 143, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
150 135 0.94
151 8 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (151 bp):
TGTTGTCCAGCCATGTTACTTACCCCGTGTTTTGTTGTTCAACAAAGCTCACAGTATAATATGTC
TAACACTGTTGATCCCCAACTGTAAATACCAGTACGATGGAGACCCTCCAATAGAGGAAAGTACT
TTAAGTAAATACTATTAGACG
Found at i:42496161 original size:103 final size:103
Alignment explanation
Indices: 42495982--42496169 Score: 286
Period size: 103 Copynumber: 1.8 Consensus size: 103
42495972 GATGTGCTCT
***
42495982 TCATTAATAAGTAGTTTATATTTACTCACAGGTAAAATAAACACTTGAATTCTTTAGAGATCTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
*
42496047 AAATTACCATCGCTTACCTCTTCACCAATTTGATATGC
66 AAACTACCATCGCTTACCTCTTCACCAATTTGATATGC
* * * * * *
42496085 TCATTAATAATTAGTTTTTCTTTACTTACAAACAAAATAAGCACTTGAATTCTTTAGAGATTTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
42496150 AAACTACCATCGCTTACCTC
66 AAACTACCATCGCTTACCTC
42496170 CTCGTCAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (103 bp):
TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
AAACTACCATCGCTTACCTCTTCACCAATTTGATATGC
Found at i:42496179 original size:103 final size:104
Alignment explanation
Indices: 42495982--42496194 Score: 284
Period size: 103 Copynumber: 2.1 Consensus size: 104
42495972 GATGTGCTCT
***
42495982 TCATTAATAAGTAGTTTATATTTACTCACAGGTAAAATAAACACTTGAATTCTTTAGAGATCTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
* * *
42496047 AAATTACCATCGCTTACCTCTTCACCAATTTGATATGC-
66 AAACTACCATCGCTTACCTCCTCACCAATTCGATATGCG
* * * * * *
42496085 TCATTAATAATTAGTTTTTCTTTACTTACAAACAAAATAAGCACTTGAATTCTTTAGAGATTTAG
1 TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
** *
42496150 AAACTACCATCGCTTACCTCCTCGTCAATTCGGTATGCG
66 AAACTACCATCGCTTACCTCCTCACCAATTCGATATGCG
42496189 TCATTA
1 TCATTA
42496195 GCAAGATACA
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
103 88 0.94
104 6 0.06
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (104 bp):
TCATTAATAAGTAGTTTATATTTACTCACAAACAAAATAAACACTTGAATTCTTTAGAGATCTAG
AAACTACCATCGCTTACCTCCTCACCAATTCGATATGCG
Found at i:42496460 original size:20 final size:20
Alignment explanation
Indices: 42496415--42496461 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
42496405 ATTATTACTA
*
42496415 AATAAAATGCTTTTGAGTTT
1 AATAAAATGCTTTTGAGTAT
**
42496435 TTTAAAAGTGCTTTTGAG-AT
1 AATAAAA-TGCTTTTGAGTAT
42496455 AATAAAA
1 AATAAAA
42496462 AAAATTTGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (20 bp):
AATAAAATGCTTTTGAGTAT
Found at i:42497642 original size:19 final size:20
Alignment explanation
Indices: 42497607--42497647 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
42497597 AAACTTAAAT
42497607 TTCCATTAAATGAA-TTTAA
1 TTCCATTAAATGAATTTTAA
* *
42497626 TTCCATTAATTGGATTTTAA
1 TTCCATTAAATGAATTTTAA
42497646 TT
1 TT
42497648 AAAGTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCCATTAAATGAATTTTAA
Found at i:42498094 original size:4 final size:4
Alignment explanation
Indices: 42498087--42498116 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
42498077 GAGAGAGAGA
42498087 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GA
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GA
42498117 CTAGAGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:42509084 original size:51 final size:51
Alignment explanation
Indices: 42509006--42509114 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
42508996 GGCTGGCTCG
* **
42509006 GCTCCAAACTTCTCCCAGCTATTCCAACTTCTCTTCTAGATTCGGCAGCCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTCTTCTAGATTCAACAGCCT
* * * *
42509057 GTTCCAAACTTCTCCCCGATATTCCAACTTCTTTTCTTGATTCAACAGCCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTCTTCTAGATTCAACAGCCT
42509108 GCTCCAA
1 GCTCCAA
42509115 CCTCATATCA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (51 bp):
GCTCCAAACTTCTCCCAGATATTCCAACTTCTCTTCTAGATTCAACAGCCT
Found at i:42517498 original size:37 final size:36
Alignment explanation
Indices: 42517457--42517535 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
42517447 CAGTAAAATG
* *
42517457 AAGGTAACCCTCGGATATAAGAACTTCAATTCCATTT
1 AAGGTAACCCT-AGATATAAGAACTTCAAATCCATTT
* * *
42517494 AAGGTAACTCTAGATATAAGAAGTTCAAATCTATTT
1 AAGGTAACCCTAGATATAAGAACTTCAAATCCATTT
42517530 AAGGTA
1 AAGGTA
42517536 TAGGAACTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 27 0.73
37 10 0.27
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (36 bp):
AAGGTAACCCTAGATATAAGAACTTCAAATCCATTT
Found at i:42527475 original size:5 final size:5
Alignment explanation
Indices: 42527465--42527508 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
42527455 TAGATTAAGT
*
42527465 TTATA TTATA TTATA TTATA TTATA TTATA TCATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
42527509 TTAAGTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:42533812 original size:63 final size:63
Alignment explanation
Indices: 42533713--42533841 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
42533703 TGTCTTCCTG
* * *
42533713 ATAACTGTGTATGTGCACACAACTTCATTAGCGTTACAGCGGTTACATAATAGTTAACGGAAC
1 ATAACTGTGTATGTGCACACAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
*
42533776 ATAACTGTGTATGTGCACGCAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
1 ATAACTGTGTATGTGCACACAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
42533839 ATA
1 ATA
42533842 CTCAGTTGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (63 bp):
ATAACTGTGTATGTGCACACAACTTAATTAGCGTTACAGCAGTTACATAATAGTTAACAGAAC
Found at i:42539037 original size:34 final size:35
Alignment explanation
Indices: 42538979--42539045 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
42538969 GGAGTCATCG
* * *
42538979 AAAATATTTTCCTATAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCTAGAAATCATTTTACAGAAAAGT
*
42539014 AAAACATTTTCC-AGAAATCATTTTACGGAAAA
1 AAAACATTTTCCTAGAAATCATTTTACAGAAAA
42539046 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCTAGAAATCATTTTACAGAAAAGT
Found at i:42547541 original size:9 final size:10
Alignment explanation
Indices: 42547507--42547544 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
42547497 AAATTATATC
42547507 TTTAAAATTA
1 TTTAAAATTA
42547517 TTTAAAGAATTA
1 TTT-AA-AATTA
42547529 TTTAAAA-TA
1 TTTAAAATTA
42547538 TTTAAAA
1 TTTAAAA
42547545 ATAATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 5 0.19
11 4 0.15
12 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:42550864 original size:3 final size:3
Alignment explanation
Indices: 42550858--42550888 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
42550848 TTCAAAGCAA
42550858 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
42550889 GTAACTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42551000 original size:10 final size:10
Alignment explanation
Indices: 42550964--42551002 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
42550954 AGAAAACGAT
42550964 TAATTTTTTA
1 TAATTTTTTA
42550974 -AATTTCTTTA
1 TAATTT-TTTA
42550984 TATATTTTTTA
1 TA-ATTTTTTA
42550995 TAATTTTT
1 TAATTTTT
42551003 AAAATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.19
10 10 0.38
11 7 0.27
12 4 0.15
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:42551067 original size:19 final size:18
Alignment explanation
Indices: 42551019--42551073 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
42551009 TAAATTTTGG
*
42551019 AATTTTTATAAATATTTTA
1 AATTTTTAAAAATA-TTTA
*
42551038 AATTTTAAAAAATATTTA
1 AATTTTTAAAAATATTTA
*
42551056 AATTTTTGAAAATTATTT
1 AATTTTT-AAAAATATTT
42551074 TGATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 10 0.32
19 21 0.68
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AATTTTTAAAAATATTTA
Found at i:42553306 original size:37 final size:37
Alignment explanation
Indices: 42553256--42553330 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
42553246 AATATATGGG
42553256 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
1 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
42553293 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
1 TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
42553330 T
1 T
42553331 ATAAGGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (37 bp):
TTGCTATAAGCATCTAGTAAATTCGGCTAGGCCTGGT
Found at i:42556069 original size:34 final size:32
Alignment explanation
Indices: 42556030--42556092 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
42556020 GATCTTCCGC
*
42556030 ATATATAAGTAAAAAAATACAAAATATTAAATTA
1 ATATAT-AGCAAAAAAATACAAAA-ATTAAATTA
* *
42556064 ATATATAGCAATAAAATAGAAAAATTAAA
1 ATATATAGCAAAAAAATACAAAAATTAAA
42556093 CAACATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 6 0.23
33 14 0.54
34 6 0.23
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (32 bp):
ATATATAGCAAAAAAATACAAAAATTAAATTA
Found at i:42556454 original size:20 final size:21
Alignment explanation
Indices: 42556406--42556460 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
42556396 CGAACTAATT
* *
42556406 AAATCGAACTAAAAATTGATTA
1 AAATC-AATTAAATATTGATTA
42556428 AAATCAATTAAATATTGATT-
1 AAATCAATTAAATATTGATTA
*
42556448 GAATCAATTAAAT
1 AAATCAATTAAAT
42556461 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 12 0.40
21 13 0.43
22 5 0.17
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
AAATCAATTAAATATTGATTA
Found at i:42557927 original size:34 final size:34
Alignment explanation
Indices: 42557884--42557953 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
42557874 AATGTGAAAA
42557884 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
1 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
42557918 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
1 GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
42557952 GT
1 GT
42557954 GCTCATGTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (34 bp):
GTATTTTTTAACTGTTACATTGTGCAGGGAATCT
Found at i:42567237 original size:10 final size:10
Alignment explanation
Indices: 42567183--42567238 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
42567173 GGTGAAAATG
42567183 ATAAAAATTT
1 ATAAAAATTT
* **
42567193 ATTAAAATCA
1 ATAAAAATTT
42567203 ATAAAAATTT
1 ATAAAAATTT
*
42567213 -TAAAAATGT
1 ATAAAAATTT
*
42567222 -TCAAAATTT
1 ATAAAAATTT
42567231 ATAAAAAT
1 ATAAAAAT
42567239 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:42567246 original size:18 final size:19
Alignment explanation
Indices: 42567186--42567259 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
42567176 GAAAATGATA
* * *
42567186 AAAATTTATTAAAATCAATA
1 AAAATTTATAAAAAT-ATTC
*
42567206 AAAATTT-TAAAAATGTTC
1 AAAATTTATAAAAATATTC
42567224 AAAATTTATAAAAATATT-
1 AAAATTTATAAAAATATTC
*
42567242 TAAATTTATGAAAAATAT
1 AAAATTTAT-AAAAATAT
42567260 AGAAAACTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 16 0.35
19 23 0.50
20 7 0.15
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATTTATAAAAATATTC
Found at i:42567317 original size:18 final size:17
Alignment explanation
Indices: 42567310--42567359 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
42567300 TTCAAATTAT
42567310 TAAAAA-TATAAAAATTA
1 TAAAAATTATAAAAA-TA
*
42567327 TAAAAAGTTTATTAAAATA
1 TAAAAA--TTATAAAAATA
42567346 TAAAAATTATAAAA
1 TAAAAATTATAAAA
42567360 TTTAATCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
19 8 0.29
20 7 0.25
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TAAAAATTATAAAAATA
Found at i:42567361 original size:8 final size:9
Alignment explanation
Indices: 42567303--42567359 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
42567293 TAAAATATTC
42567303 AAATTATTAA
1 AAATTA-TAA
42567313 AAA-TATAA
1 AAATTATAA
42567321 AAATTATAA
1 AAATTATAA
*
42567330 AAAGTTTATTA
1 AAA--TTATAA
42567341 AAA-TATAA
1 AAATTATAA
42567349 AAATTATAA
1 AAATTATAA
42567358 AA
1 AA
42567360 TTTAATCTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 13 0.32
9 17 0.41
10 3 0.07
11 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTATAA
Found at i:42567866 original size:19 final size:19
Alignment explanation
Indices: 42567844--42567890 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
42567834 ATATATTTTT
*
42567844 TATATTTTTAATAAATTTG
1 TATATTTTTAATAAATTTA
*
42567863 TATATTTTTAATAATTTTA
1 TATATTTTTAATAAATTTA
42567882 TAATATTTT
1 T-ATATTTT
42567891 AAATTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATTTTTAATAAATTTA
Found at i:42567891 original size:19 final size:18
Alignment explanation
Indices: 42567841--42567909 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 18
42567831 TCTATATATT
42567841 TTTTATATTTTTAATAAA
1 TTTTATATTTTTAATAAA
42567859 TTTGTATATTTTTAAT-AA
1 TTT-TATATTTTTAATAAA
*
42567877 TTTTATAATATTT--TAAA
1 TTTTAT-ATTTTTAATAAA
*
42567894 TTTTTTCATTTTTAAT
1 TTTTAT-ATTTTTAAT
42567910 TATTTATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 15 0.36
18 13 0.31
19 13 0.31
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTAATAAA
Found at i:42568314 original size:26 final size:26
Alignment explanation
Indices: 42568270--42568380 Score: 116
Period size: 26 Copynumber: 4.2 Consensus size: 26
42568260 TTTAACAAAT
* *
42568270 TTTTTCTAAATTTTAAATATTTTTCTA
1 TTTTT-TATATTTTGAATATTTTTCTA
*
42568297 TTTTTTAT-TTTTACAATATTTTTCTA
1 TTTTTTATATTTT-GAATATTTTTCTA
*
42568323 TTTTTTTATGATTTTGAATATTTTTATA
1 -TTTTTTAT-ATTTTGAATATTTTTCTA
* * *
42568351 ATTTCTATATTTTGAATATTTTTTTA
1 TTTTTTATATTTTGAATATTTTTCTA
42568377 TTTT
1 TTTT
42568381 AATAAAATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 4 0.06
26 34 0.47
27 19 0.26
28 11 0.15
29 4 0.06
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTTTATATTTTGAATATTTTTCTA
Found at i:42568327 original size:54 final size:54
Alignment explanation
Indices: 42568268--42568380 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
42568258 GTTTTAACAA
* * *
42568268 ATTTTTTCTA-AATTTTAAATATTTTTCTATTTTTTAT-TTTTACAATATTTTTCT
1 ATTTTTT-TATAATTTTAAATATTTTTATAATTTCTATATTTT-CAATATTTTTCT
* * * *
42568322 ATTTTTTTATGATTTTGAATATTTTTATAATTTCTATATTTTGAATATTTTTTT
1 ATTTTTTTATAATTTTAAATATTTTTATAATTTCTATATTTTCAATATTTTTCT
42568376 ATTTT
1 ATTTT
42568381 AATAAAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.04
54 44 0.88
55 4 0.08
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (54 bp):
ATTTTTTTATAATTTTAAATATTTTTATAATTTCTATATTTTCAATATTTTTCT
Found at i:42573495 original size:50 final size:50
Alignment explanation
Indices: 42573420--42573596 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
42573410 CCATGGCAGC
*
42573420 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
42573470 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
42573520 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
42573571 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
42573597 CTGATCAATG
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
50 96 0.81
51 23 0.19
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:42573614 original size:31 final size:31
Alignment explanation
Indices: 42573576--42573634 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
42573566 ATGGCAAGTA
42573576 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
42573607 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
42573635 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:42573642 original size:46 final size:46
Alignment explanation
Indices: 42573589--42573680 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
42573579 AGTGGTAGCT
* *
42573589 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
42573635 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
42573681 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:42573684 original size:31 final size:31
Alignment explanation
Indices: 42573636--42573704 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
42573626 ACCTGATCAT
* * *
42573636 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
42573667 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
42573698 CGGCTAC
1 CGGCTAC
42573705 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:42574895 original size:14 final size:14
Alignment explanation
Indices: 42574873--42574902 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42574863 TTCGATTTTT
*
42574873 TTAACCTTTTAACC
1 TTAAACTTTTAACC
42574887 TTAAACTTTTAACC
1 TTAAACTTTTAACC
42574901 TT
1 TT
42574903 TTCTTACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAACTTTTAACC
Found at i:42577841 original size:18 final size:20
Alignment explanation
Indices: 42577814--42577858 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
42577804 TCAAATTAAG
*
42577814 TTTTTATAATA-TTTAGTTA
1 TTTTTATAATACTTTAGTAA
*
42577833 TTTTT-TAATACTTTTGTAA
1 TTTTTATAATACTTTAGTAA
42577852 TTTTTAT
1 TTTTTAT
42577859 TTTTCTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATAATACTTTAGTAA
Found at i:42581886 original size:27 final size:27
Alignment explanation
Indices: 42581856--42581909 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
42581846 AAACTATCAA
42581856 ACATCAAATAATAAAGAAAATCATACT
1 ACATCAAATAATAAAGAAAATCATACT
*
42581883 ACATCAAATAATAATGAAAATCATACT
1 ACATCAAATAATAAAGAAAATCATACT
42581910 TTTTTTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.24
Consensus pattern (27 bp):
ACATCAAATAATAAAGAAAATCATACT
Found at i:42582455 original size:9 final size:9
Alignment explanation
Indices: 42582441--42582508 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
42582431 AGAAGTATAA
42582441 AATTAACCG
1 AATTAACCG
*
42582450 AATTAATCG
1 AATTAACCG
*
42582459 AATTAATCG
1 AATTAACCG
42582468 AATTAACCG
1 AATTAACCG
*
42582477 AATTACCCG
1 AATTAACCG
* * **
42582486 AGTTATCTA
1 AATTAACCG
42582495 AATTAACCG
1 AATTAACCG
42582504 AATTA
1 AATTA
42582509 TTTGTATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:42582471 original size:27 final size:27
Alignment explanation
Indices: 42582440--42582508 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
42582430 AAGAAGTATA
*
42582440 AAATTAACCGAATTAATCGAATTAATC-
1 AAATTAACCGAATTAACCGAATT-ATCT
* * *
42582467 GAATTAACCGAATTACCCGAGTTATCT
1 AAATTAACCGAATTAACCGAATTATCT
42582494 AAATTAACCGAATTA
1 AAATTAACCGAATTA
42582509 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGAATTATCT
Found at i:42582539 original size:6 final size:6
Alignment explanation
Indices: 42582528--42582567 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
42582518 AATTGTATGC
* *
42582528 TTTTTA TTTTTA TTTTTA GTTTTA GATTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTT
42582568 ATTAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:42582619 original size:18 final size:18
Alignment explanation
Indices: 42582596--42582631 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
42582586 TTTATGATTG
42582596 GGTTGGGTAATTGGGTTA
1 GGTTGGGTAATTGGGTTA
*
42582614 GGTTGGGTACTTGGGTTA
1 GGTTGGGTAATTGGGTTA
42582632 ATATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.44, T:0.39
Consensus pattern (18 bp):
GGTTGGGTAATTGGGTTA
Found at i:42583664 original size:19 final size:19
Alignment explanation
Indices: 42583640--42583709 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
42583630 TGAAAGCAAG
42583640 AACTCAGCAAAAAGAAGGT
1 AACTCAGCAAAAAGAAGGT
** *
42583659 AACTCAATGC--TCA-AATGT
1 AACTC-A-GCAAAAAGAAGGT
*
42583677 AACTCAGCTAAAAGAAGGT
1 AACTCAGCAAAAAGAAGGT
42583696 AACTCAGCTAAAAA
1 AACTCAGC-AAAAA
42583710 CTTAGTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
16 2 0.05
17 1 0.03
18 10 0.26
19 18 0.47
20 5 0.13
21 2 0.05
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.17
Consensus pattern (19 bp):
AACTCAGCAAAAAGAAGGT
Found at i:42584291 original size:21 final size:20
Alignment explanation
Indices: 42584266--42584308 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
42584256 TAAATTTTTT
*
42584266 AATTTAACTCAATTTGAATTC
1 AATTTAACTCAACTTG-ATTC
*
42584287 AATTTTACTCAACTTGATTC
1 AATTTAACTCAACTTGATTC
42584307 AA
1 AA
42584309 AAAAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (20 bp):
AATTTAACTCAACTTGATTC
Found at i:42590334 original size:17 final size:19
Alignment explanation
Indices: 42590299--42590336 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42590289 GGCCTTTAGG
*
42590299 ATTTTTTTTTCCTTCTTCT
1 ATTTTTTATTCCTTCTTCT
42590318 ATTTTTTATT-CTT-TTCT
1 ATTTTTTATTCCTTCTTCT
42590335 AT
1 AT
42590337 CCTTCTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTATTCCTTCTTCT
Found at i:42591677 original size:20 final size:20
Alignment explanation
Indices: 42591647--42591691 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
42591637 CTGTTTTGTT
42591647 ATGGG-CCAACTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
42591666 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
42591686 ATGGGC
1 ATGGGC
42591692 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:42591760 original size:60 final size:59
Alignment explanation
Indices: 42591682--42591820 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 59
42591672 CCAACTGTGT
* *
42591682 TGATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATAC
1 TGATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATAC
* *
42591742 TGATATGGGCTAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATAC
42591802 TGATATGGGCTAAGGCCCA
1 TGATATGGGCT-AGGCCCA
42591821 GTTAACACTG
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
59 1 0.01
60 55 0.77
61 15 0.21
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
TGATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:42594857 original size:20 final size:19
Alignment explanation
Indices: 42594821--42594859 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
42594811 CTTTAGGATT
*
42594821 TATTTTTTTTTCCTTCTTC
1 TATTTTTTATTCCTTCTTC
42594840 TATTTTTTATT-CTT-TTC
1 TATTTTTTATTCCTTCTTC
42594857 TAT
1 TAT
42594860 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTTTTTATTCCTTCTTC
Found at i:42596192 original size:20 final size:20
Alignment explanation
Indices: 42596162--42596206 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
42596152 CTATTTTGTT
42596162 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
42596181 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
42596201 ATGGGC
1 ATGGGC
42596207 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:42596336 original size:28 final size:28
Alignment explanation
Indices: 42596235--42596348 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
42596225 ACTTGTAATA
* * *
42596235 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
* *
42596263 GGGCT-AGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAAGGCCCAG-A---T-TAATACTGAT-AT
*
42596295 AGGGCTATGGCCCAGATTAATACTGATAT
1 -GGGCTAAGGCCCAGATTAATACTGATAT
*
42596324 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
42596349 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
27 17 0.25
28 19 0.28
29 8 0.12
30 2 0.03
31 1 0.01
32 9 0.13
33 6 0.09
34 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:42596369 original size:62 final size:61
Alignment explanation
Indices: 42596227--42596371 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
42596217 ATATCTCGAC
* * *
42596227 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
42596288 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
42596349 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
42596372 TAAAGCTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 42 0.57
62 30 0.41
63 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (61 bp):
TTGTAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:42597607 original size:3 final size:3
Alignment explanation
Indices: 42597599--42597626 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
42597589 TTTAAATTGT
42597599 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42597627 ATGTGTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42601257 original size:3 final size:3
Alignment explanation
Indices: 42601251--42601280 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
42601241 CTACTACTAC
42601251 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
42601281 ATCTGACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.