Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 196 of 210
Found at i:57630701 original size:19 final size:19
Alignment explanation
Indices: 57630677--57630714 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
57630667 GTAAATATTT
*
57630677 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
57630696 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
57630715 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:57630979 original size:43 final size:43
Alignment explanation
Indices: 57630907--57631331 Score: 370
Period size: 43 Copynumber: 9.9 Consensus size: 43
57630897 GCGTTTTTTA
* * * * * *
57630907 AAAAAGCGCTGCTAAAGGTTAGGGTCTTTAGCGATGTTTGTGA
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGG
**
57630950 AAAAAGCGCCGCTAAAGATCAT-GTCCTTTAGC-AGCGTTT-TCCT
1 AAAAAGCGCCGCTAAAGATCATGGT-CTTTAGCGA-CGTTTGT-GG
*
57630993 AAAAAGCGCCGCTAAA-AGTCATGGTCTTTAGCGGCGTTTGTGG
1 AAAAAGCGCCGCTAAAGA-TCATGGTCTTTAGCGACGTTTGTGG
* * *
57631036 TAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGG
* *
57631079 TAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGTCGTTTGTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGG
* * **
57631122 TAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTT-TCCT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGT-GG
* * * * *
57631165 AAAAAACACCGCTAAA-AGTCATGGTCTTTAGCGGCGTTTTTCCCG
1 AAAAAGCGCCGCTAAAGA-TCATGGTCTTTAGCGACGTTTGT--GG
* * * * *
57631210 -CAAA-TGCCGCTAAAGGTTATGGTCTTTAGCGGCGTTTG-GG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGG
* * * *
57631250 GAAAAGCACCGCTAAAGGA-CATGATCTTTAGCGGCGTTTGTGGG
1 AAAAAGCGCCGCTAAA-GATCATGGTCTTTAGCGACGTTTGT-GG
*
57631294 AAAAA-CGCCGCTAAAGGA-CATGGTCTTTAGCGGCGTTT
1 AAAAAGCGCCGCTAAA-GATCATGGTCTTTAGCGACGTTT
57631332 TTTTCTTAAA
Statistics
Matches: 327, Mismatches: 37, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 34 0.10
43 274 0.84
44 13 0.04
45 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGG
Found at i:57631007 original size:86 final size:85
Alignment explanation
Indices: 57630907--57631332 Score: 425
Period size: 86 Copynumber: 5.0 Consensus size: 85
57630897 GCGTTTTTTA
* * * * **
57630907 AAAAAGCGCTGCTAAAGGTTAGGGTCTTTAGCGATGTTTGTGAAAAAAGCGCCGCTAAAGATCAT
1 AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCG-TGTTTGTGGTAAAAGCGCCGCTAAAGATCAT
*
57630972 -GTCCTTTAGCAGCGTTTTCCT
65 GGT-CTTTAGCGGCGTTTTCCT
* *
57630993 AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAT
1 AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGC-GTGTTTGTGGTAAAAGCGCCGCTAAAGATCAT
**
57631058 GGTCTTTAGCGGCGTTTGTGGT
65 GGTCTTTAGCGGCGTTT-TCCT
57631080 -AAAAGCGCCGCT-AAAGATCATGGTCTTTAGCGTCGTTTGTGGTAAAAGCGCCGCTAAAGATCA
1 AAAAAGCGCCGCTAAAAG-TCATGGTCTTTAGCGT-GTTTGTGGTAAAAGCGCCGCTAAAGATCA
57631143 TGGTCTTTAGCGGCGTTTTCCT
64 TGGTCTTTAGCGGCGTTTTCCT
* * * * * * * * *
57631165 AAAAAACACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTCCCG-CAAA-TGCCGCTAAAGGTT
1 AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGC-GTGTTTGT--GGTAAAAGCGCCGCTAAAGATC
***
57631228 ATGGTCTTTAGCGGCG-TTTGGG
63 ATGGTCTTTAGCGGCGTTTTCCT
* * * * * * * *
57631250 GAAAAGCACCGCTAAAGGACATGATCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGA-CA
1 AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGC-GTGTTTGTGGTAAAAGCGCCGCTAAA-GATCA
57631314 TGGTCTTTAGCGGCGTTTT
64 TGGTCTTTAGCGGCGTTTT
57631333 TTTCTTAAAA
Statistics
Matches: 288, Mismatches: 38, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
83 1 0.00
84 3 0.01
85 70 0.24
86 200 0.69
87 13 0.05
88 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (85 bp):
AAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGTGTTTGTGGTAAAAGCGCCGCTAAAGATCATG
GTCTTTAGCGGCGTTTTCCT
Found at i:57631127 original size:129 final size:127
Alignment explanation
Indices: 57630907--57631331 Score: 466
Period size: 129 Copynumber: 3.3 Consensus size: 127
57630897 GCGTTTTTTA
* * * ** *
57630907 AAAAAGCGCTGCTAAAGGTTAGGGTCTTTAGCGATGTTTGTGAAAAAAGCGCCGCTAAAGATCAT
1 AAAAA-CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGATCAT
**
57630972 -GTCCTTTAGCAGCGTTT-TCCTAAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTG
64 GGT-CTTTAGC-GCGTTTGTGGT-AAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTG
57631035 GT
126 GT
*
57631037 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCATG
**
57631102 GTCTTTAGCGTCGTTTGTGGTAAAAGCGCCGCT-AAAGATCATGGTCTTTAGCGGCGTTT-TCCT
65 GTCTTTAGCG-CGTTTGTGGTAAAAGCGCCGCTAAAAG-TCATGGTCTTTAGCGGCGTTTGTGGT
* * * * * * * *
57631165 AAAAAACACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTCCCGCAAA-TGCCGCTAAAGGTTA
1 -AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT--GGAAAAGCGCCGCTAAAGATCA
* * * * *
57631229 TGGTCTTTAGCGGCGTTTG-GGGAAAAGCACCGCTAAAGGACATGATCTTTAGCGGCGTTTGTGG
63 TGGTCTTTAGC-GCGTTTGTGGTAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGG
*
57631293 G
127 T
*
57631294 AAAAACGCCGCTAAAGGACATGGTCTTTAGCGGCGTTT
1 AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT
57631332 TTTTCTTAAA
Statistics
Matches: 253, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
128 74 0.29
129 166 0.66
130 12 0.05
131 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (127 bp):
AAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCATGG
TCTTTAGCGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGT
Found at i:57631988 original size:18 final size:18
Alignment explanation
Indices: 57631965--57632003 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
57631955 ATATTAAGAT
*
57631965 TACTTTTTTTTTTAGTTC
1 TACTTTTTTTTTTAATTC
57631983 TACTTTTTTTTTTAATTC
1 TACTTTTTTTTTTAATTC
57632001 TAC
1 TAC
57632004 CTAAAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (18 bp):
TACTTTTTTTTTTAATTC
Found at i:57636094 original size:27 final size:27
Alignment explanation
Indices: 57636052--57636105 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
57636042 CAACTCAACC
* *
57636052 ATAAACTAATCCTTAATCTTGATTCTA
1 ATAAACTAATCCTTAATATTAATTCTA
57636079 ATAAACTAA-CCTTTAATATTAATTCTA
1 ATAAACTAATCC-TTAATATTAATTCTA
57636106 TGACTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (27 bp):
ATAAACTAATCCTTAATATTAATTCTA
Found at i:57640604 original size:89 final size:86
Alignment explanation
Indices: 57640511--57640690 Score: 218
Period size: 89 Copynumber: 2.1 Consensus size: 86
57640501 TAAGTTTCTT
* * * * * * ***
57640511 TTTTTTTTTTTCATTTATTTGGGTACTTGAACTTTCAGAATGCATCAATATG-GTTCTCAAAACT
1 TTTTTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAAATGCATCAA-AAGCACCCTC-AAACT
57640575 TTAAAAAAAAACAATTAAGCCGCTG
64 TT-AAAAAAAA-AATTAAGCCGCTG
*
57640600 TTTTTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAAATGTATCAAAAGCACCCTCAAACTTT
1 TTTTTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAAATGCATCAAAAGCACCCTCAAACTTT
*
57640665 AAAAAAAAAATTAAGCCTCTG
66 AAAAAAAAAATTAAGCCGCTG
57640686 TTTTT
1 TTTTT
57640691 ATTAAAAATT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
86 17 0.22
87 8 0.10
88 9 0.11
89 45 0.57
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (86 bp):
TTTTTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAAATGCATCAAAAGCACCCTCAAACTTT
AAAAAAAAAATTAAGCCGCTG
Found at i:57640726 original size:29 final size:30
Alignment explanation
Indices: 57640694--57640764 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
57640684 TGTTTTTATT
*
57640694 AAAAATTAGAAAAAATTTGTAAAAAT-ATA
1 AAAAATTAGAAAAAATTTATAAAAATCATA
* *
57640723 AAAAATT-GTAAAATTTTATAAAAATCATA
1 AAAAATTAGAAAAAATTTATAAAAATCATA
*
57640752 AAAAATTATAAAA
1 AAAAATTAGAAAA
57640765 TATATAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 15 0.43
29 17 0.49
30 3 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (30 bp):
AAAAATTAGAAAAAATTTATAAAAATCATA
Found at i:57640731 original size:18 final size:20
Alignment explanation
Indices: 57640693--57640735 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
57640683 CTGTTTTTAT
57640693 TAAAAATTAGAAAAAATTTG
1 TAAAAATTAGAAAAAATTTG
*
57640713 TAAAAA-TATAAAAAA-TTG
1 TAAAAATTAGAAAAAATTTG
57640731 TAAAA
1 TAAAA
57640736 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAAATTAGAAAAAATTTG
Found at i:57640765 original size:29 final size:27
Alignment explanation
Indices: 57640705--57640783 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
57640695 AAAATTAGAA
* *
57640705 AAAATTTGTAAAAATATAAAAAATTGT
1 AAAATTTATAAAAATATAAAAAATTAT
57640732 AAAATTTTATAAAAATCATAAAAAATTAT
1 AAAA-TTTATAAAAAT-ATAAAAAATTAT
* *
57640761 AAAATATATAGAAATATAAAAAA
1 AAAATTTATAAAAATATAAAAAA
57640784 AATTATAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.26
28 19 0.41
29 15 0.33
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAATTTATAAAAATATAAAAAATTAT
Found at i:57641052 original size:35 final size:35
Alignment explanation
Indices: 57640986--57641055 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
57640976 ATTTTATTAT
* **
57640986 TTTTTTATTATTTTTATAAAATTTTACAATTTTTA
1 TTTTTTATGATTTTTATAAAAAATTACAATTTTTA
57641021 TTTTTTATGATTTTTATAAAAAATT-CTAATTTTTA
1 TTTTTTATGATTTTTATAAAAAATTAC-AATTTTTA
57641056 ATAAATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (35 bp):
TTTTTTATGATTTTTATAAAAAATTACAATTTTTA
Found at i:57641286 original size:89 final size:88
Alignment explanation
Indices: 57641155--57641321 Score: 208
Period size: 88 Copynumber: 1.9 Consensus size: 88
57641145 TTAATAAGAG
* ** * *
57641155 TAGGGGCTTAATTACTTGTTTAAAAAATTTTGAGAGTTTTTTTTTATGCATTTTGAAAGTTCAAG
1 TAGGGGCTTAATTACTTGTTTAAAAAAGTTTGAGAG-CCTTTTTGATGCATTTTAAAAGTTCAAG
57641220 CACCCAATTGAGTGTTTAAAAAAT
65 CACCCAATTGAGTGTTTAAAAAAT
* * * * * * *
57641244 TAGGGGCTTAATTGCTTTTTTTAAGAAGTTTGAGGGCCTTTTTGATGCATTTTAAAAGTTTAAGT
1 TAGGGGCTTAATTACTTGTTTAAAAAAGTTTGAGAGCCTTTTTGATGCATTTTAAAAGTTCAAGC
*
57641309 ACTCAATTGAGTG
66 ACCCAATTGAGTG
57641322 CAAAAAAAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
88 35 0.54
89 30 0.46
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (88 bp):
TAGGGGCTTAATTACTTGTTTAAAAAAGTTTGAGAGCCTTTTTGATGCATTTTAAAAGTTCAAGC
ACCCAATTGAGTGTTTAAAAAAT
Found at i:57646927 original size:22 final size:22
Alignment explanation
Indices: 57646901--57646945 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
57646891 ATAAATGCGC
*
57646901 ATATAATATATGC-ATAATAATA
1 ATATAATATA-ACAATAATAATA
57646923 ATATAATATAACAATAATAATA
1 ATATAATATAACAATAATAATA
57646945 A
1 A
57646946 ATGCTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAATATAACAATAATAATA
Found at i:57646957 original size:19 final size:19
Alignment explanation
Indices: 57646914--57646960 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
57646904 TAATATATGC
57646914 ATAATAATAATATAATATA
1 ATAATAATAATATAATATA
* *
57646933 ACAATAATAATA-AATGCTA
1 ATAATAATAATATAAT-ATA
57646952 ATAATAATA
1 ATAATAATA
57646961 TAGTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAATAATATAATATA
Found at i:57649779 original size:47 final size:45
Alignment explanation
Indices: 57649718--57649812 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 45
57649708 TATCCACAAT
** *
57649718 TCTGTTTGACAAC-TTGTCTGCAATTATGGTGACTTGACCATATACA
1 TCTGTTTGACAACTTTG-CTGCAA-TATAATGACTTGACCACATACA
* *
57649764 TCTGTTCTGGCAACTTTGCTGCAATATAATGACTTGACCACATATA
1 TCTGTT-TGACAACTTTGCTGCAATATAATGACTTGACCACATACA
57649810 TCT
1 TCT
57649813 AATATGTCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.64
47 12 0.29
48 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (45 bp):
TCTGTTTGACAACTTTGCTGCAATATAATGACTTGACCACATACA
Found at i:57650985 original size:43 final size:43
Alignment explanation
Indices: 57650937--57651158 Score: 345
Period size: 43 Copynumber: 5.2 Consensus size: 43
57650927 TTTTAAAAAT
* *
57650937 AAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTCCACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
*
57650980 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
* *
57651023 AAACGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTCTAACAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
* *
57651066 AAACGCCGCTAAAGAACAATACCTTTAGCGGCGCTTCTAACAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
* * * *
57651109 AAACGCCACTAAAGATCATGACCTTTAGCGGCGCTTCTACAAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
57651152 AAACGCC
1 AAACGCC
57651159 ACTATAAAGA
Statistics
Matches: 165, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 165 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
Found at i:57651847 original size:12 final size:12
Alignment explanation
Indices: 57651830--57651859 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57651820 GAATGCGTCC
57651830 TATGATCAACAT
1 TATGATCAACAT
57651842 TATGATCAACAT
1 TATGATCAACAT
*
57651854 TGTGAT
1 TATGAT
57651860 ATTCACCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (12 bp):
TATGATCAACAT
Found at i:57653029 original size:194 final size:193
Alignment explanation
Indices: 57652719--57653168 Score: 580
Period size: 194 Copynumber: 2.3 Consensus size: 193
57652709 CGACAAACAG
* * * *
57652719 ATTCCCATTCTTAAAAGTCATTTTTCTTCGACTCTTGAAAAACTCAAAAGCAATATATAGCAACA
1 ATTCCCATTCTTAAAAAT-ATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACA
* *
57652784 AACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACATTAAGGAATCAAGATTTCATA
65 AACAACATATATCAACAACCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATA
* * * * * * *
57652849 GCTTCGGATATGTCATAAAATGGGGTTTTGTTGAGAAGAAATTCG-GACAGTTAAACAACACCTG
130 ACGTCAGAAATGTCATAAAAT-GGGTTTTGTCGAGAAGAAATT-GAGACAGTTAAACAAAACCCG
57652913 A
193 A
* *
57652914 ATTCCCATTCTTAAAAATGTTTCTCTTCGACTTTTGTAAAACTCAAAAGCAATATACAGCAACAA
1 ATTCCCATTCTTAAAAATATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACAA
* * * * *
57652979 ACAGCATATATCGACAACCATAAACACAAATTCAGCAGAATCAGTAAGGAATCAAGATTTTATAA
66 ACAACATATATCAACAACCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATAA
** * * *
57653044 CGTCAGAAATGTTGTAAACTGGGTTTTGTCGAGAAGCAATTGAGACAGTTAAACAAAACCCGT
131 CGTCAGAAATGTCATAAAATGGGTTTTGTCGAGAAGAAATTGAGACAGTTAAACAAAACCCGA
* * * * *
57653107 ATTCCCGTTTTTCAAAGACATTTCTCTTCGATTTTTGAAAAACTC-AAAGCAATATACAGCAA
1 ATTCCCATTCTT-AAAAATATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAA
57653169 TATTTCCAAT
Statistics
Matches: 221, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
192 1 0.00
193 63 0.29
194 140 0.63
195 17 0.08
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (193 bp):
ATTCCCATTCTTAAAAATATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACAA
ACAACATATATCAACAACCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATAA
CGTCAGAAATGTCATAAAATGGGTTTTGTCGAGAAGAAATTGAGACAGTTAAACAAAACCCGA
Found at i:57662021 original size:20 final size:19
Alignment explanation
Indices: 57661984--57662026 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
57661974 AATTATTTTG
57661984 TAATAGTTTAAAAAAATTAT
1 TAATAGTTTAAAAAAATT-T
* * *
57662004 TAATAGTTTTAGAGAATTT
1 TAATAGTTTAAAAAAATTT
57662023 TAAT
1 TAAT
57662027 TAAATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (19 bp):
TAATAGTTTAAAAAAATTT
Found at i:57663012 original size:14 final size:14
Alignment explanation
Indices: 57662993--57663022 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
57662983 CTATCGGCAC
57662993 ATTGTTCTTGAGAT
1 ATTGTTCTTGAGAT
57663007 ATTGTTCTTGAGAT
1 ATTGTTCTTGAGAT
57663021 AT
1 AT
57663023 AAGAACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (14 bp):
ATTGTTCTTGAGAT
Found at i:57663529 original size:24 final size:25
Alignment explanation
Indices: 57663489--57663535 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
57663479 CAACTTCTAA
*
57663489 AGAAAACTCTAGAGAGAATTCTGGG
1 AGAAAACTCAAGAGAGAATTCTGGG
57663514 AGAAAACTCAAG-GAGAATTCTG
1 AGAAAACTCAAGAGAGAATTCTG
57663536 CACTTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.19
Consensus pattern (25 bp):
AGAAAACTCAAGAGAGAATTCTGGG
Found at i:57667338 original size:24 final size:25
Alignment explanation
Indices: 57667298--57667344 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
57667288 CAACTTCTAA
*
57667298 AGAAAACTCTAGAGAGAATTCTGGG
1 AGAAAACTCAAGAGAGAATTCTGGG
57667323 AGAAAACTCAAG-GAGAATTCTG
1 AGAAAACTCAAGAGAGAATTCTG
57667345 CACTTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.19
Consensus pattern (25 bp):
AGAAAACTCAAGAGAGAATTCTGGG
Found at i:57678796 original size:23 final size:23
Alignment explanation
Indices: 57678770--57678818 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
57678760 ATGCCTATTT
*
57678770 ATAGGATTGTAAA-CCTTATTCTA
1 ATAGGAGTG-AAACCCTTATTCTA
57678793 ATAGGAGTGAAACTCCTTATTCTA
1 ATAGGAGTGAAAC-CCTTATTCTA
57678817 AT
1 AT
57678819 CAATATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 3 0.13
23 8 0.35
24 12 0.52
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (23 bp):
ATAGGAGTGAAACCCTTATTCTA
Found at i:57679987 original size:23 final size:23
Alignment explanation
Indices: 57679943--57679997 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
57679933 TTATCTTTAA
* *
57679943 AATTTT-AATTATATTTCAAAATT
1 AATTTTAAATAATATATCAAAA-T
57679966 AATTTTAAATAATATATC-AAAT
1 AATTTTAAATAATATATCAAAAT
57679988 ATATTTTAAA
1 A-ATTTTAAA
57679998 ATTTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 17 0.61
24 9 0.32
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTTAAATAATATATCAAAAT
Found at i:57683959 original size:18 final size:19
Alignment explanation
Indices: 57683928--57683970 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
57683918 TTAAAAAGTT
57683928 AAAATAAAATTTAAT-TTA
1 AAAATAAAATTTAATATTA
57683946 AAAAT-AAATATTAATATTA
1 AAAATAAAAT-TTAATATTA
*
57683965 CAAATA
1 AAAATA
57683971 TATTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATAAAATTTAATATTA
Found at i:57685229 original size:19 final size:19
Alignment explanation
Indices: 57685205--57685244 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
57685195 CTTGAGAGTG
*
57685205 TTAGCACACTTAACTTGAT
1 TTAGCACACTCAACTTGAT
57685224 TTAGCACACTCAACTTGAT
1 TTAGCACACTCAACTTGAT
57685243 TT
1 TT
57685245 TGACCATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (19 bp):
TTAGCACACTCAACTTGAT
Found at i:57690991 original size:42 final size:43
Alignment explanation
Indices: 57690900--57691052 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 43
57690890 AATGGCATAT
* * ** * * * **
57690900 CCCAGATATGGTCTTACATGTTATCACATATGGATGTCACTGT
1 CCCAGACATGGTCTTACACGAAATCTCATATCGATGCCACTAC
*
57690943 CCCAGACA-GAGTCTTATACGAAA--TCATATACGATGCCACTAC
1 CCCAGACATG-GTCTTACACGAAATCTCATAT-CGATGCCACTAC
* * **
57690985 CCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCTCATATCGATGCCACTAC
* *
57691028 CTCAAACATGGTCTTACACGAAATC
1 CCCAGACATGGTCTTACACGAAATC
57691053 AAACCTCAAG
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
41 5 0.06
42 28 0.32
43 48 0.55
44 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCTCATATCGATGCCACTAC
Found at i:57693617 original size:27 final size:28
Alignment explanation
Indices: 57693587--57693640 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
57693577 AGCTAGACTG
57693587 TTAAAGAAGTTAG-CTGTTAAAAAGCTA
1 TTAAAGAAGTTAGTCTGTTAAAAAGCTA
* *
57693614 TTAAAGAAGTTAGTTTGTTAAATAGCT
1 TTAAAGAAGTTAGTCTGTTAAAAAGCT
57693641 TAGCAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.35
Consensus pattern (28 bp):
TTAAAGAAGTTAGTCTGTTAAAAAGCTA
Found at i:57702416 original size:43 final size:43
Alignment explanation
Indices: 57702346--57702739 Score: 569
Period size: 43 Copynumber: 9.2 Consensus size: 43
57702336 AGTGCCGCTA
* * *
57702346 ACCTTTA-CGGCGTTTATTTCTAAAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTT-TTTCCACAAACGCCGCTAAAGAACAAG
57702389 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
*
57702432 ACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
* * * * *
57702475 ACCTTTAACGGTGCTTCTTT-CACAAATGCCACTAAAGAATAAG
1 ACCTTTAGCGGCGCTT-TTTCCACAAACGCCGCTAAAGAACAAG
57702518 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
57702561 ACCTTTAGCGGCGCTTTTT-CACAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
* *
57702603 ACCTTTAGCAGCGCTTTTTCCACAAACGCCGCTAAAGAACAAC
1 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
* * *
57702646 ACCTTTTAGCGGCGCTTTTTCCACAAACACCGCTATAGAACAAT
1 ACC-TTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
* * * * *
57702690 ACCTTTTGCGACGCTTTTCCCAAAAACGCCGCTAAAGAACATG
1 ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
57702733 ACCTTTA
1 ACCTTTA
57702740 AAAAAATATT
Statistics
Matches: 317, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
42 44 0.14
43 224 0.71
44 49 0.15
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAG
Found at i:57706452 original size:107 final size:105
Alignment explanation
Indices: 57706045--57706904 Score: 1019
Period size: 107 Copynumber: 8.1 Consensus size: 105
57706035 TTTTATTTTG
*
57706045 TTTTTTT-ATAAATTGA--T-TTAT-TTTTGTGGCGCTTTTATAAAAAACGCCGCAAAAAAATTA
1 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGCTTTTATAAAAAACGCCGC-AAAAAATTA
*
57706105 TTTCGTTTTGAACAAAATGACGCCGTTTTGATATGCT--AA
65 TTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
* * *
57706144 TTTTTTTAAAATAAATTGATTTATTATCTTTTGCGGCGTTTTTATGAAAAACGTCGCAAAAAATT
1 TTTTTTT--AATAAATTGATTTATTATCTTTTGCGGCGCTTTTATAAAAAACGCCGCAAAAAATT
* * *
57706209 ATTTCAG-TTTGAA-AAAATGACGTCATTTTGCTGTGCTAAAA
64 ATTTC-GTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
* *** * *
57706250 TTTTTTTATTGTTTTTTTATAAATTGATTTAT-TTTTGCGGCGCTTTTATAAAAAACGCCGGAAA
1 TTTTTTTA--ATAAATTGAT---TT-A-TTATCTTTTGCGGCGCTTTTATAAAAAACGCCGCAAA
*
57706314 AAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTAAGCTAAAA
59 AAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
57706361 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGCTTTTATAAAAAACGCCGCAAAAAAATTT
1 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGCTTTTATAAAAAACGCCGC-AAAAAA-TT
* *
57706426 ATTTCGTTTTGAACAAAATGACGCCGTTTTGCTAAGTTAAAA
64 ATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
*
57706468 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGTGCTTTTATAAAAAACGCCGCAAAAAAAATT
1 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGCTTTTATAAAAAACGCCGC--AAAAAATT
57706533 ATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
64 ATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
* * *
57706575 TTTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGTTTTTTATGACAAACGCCGCAAAAAATT
1 -TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCG-CTTTTATAAAAAACGCCGCAAAAAATT
* *
57706640 ATTTCAG-TTTGAA-AAAATGACGCCATTTTGCTGTGCTAAAA
64 ATTTC-GTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
* * *** * * *
57706681 ATTTTTTATTTTTTTTTATAAATTGATTTAT-TTTTGCTGTGCTTTTATAAAAAACGCCGCAAAA
1 TTTTTTTA-ATAAATTGAT---TT-A-TTATCTTTTGCGGCGCTTTTATAAAAAACGCCGCAAAA
* * *
57706745 AATTTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAT
60 AA-TTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
* *
57706792 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCG-TTTTACATAAAAACGCCACAAAAAATTA
1 TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGCTTTTATA-AAAAACGCCGCAAAAAATTA
* ** *
57706856 TTTCATTTCCAACAAAATGACGCCGTTTTGCTATGATAAAA
65 TTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
*
57706897 ATTTTTTA
1 TTTTTTTA
57706905 TTTTGCTTTT
Statistics
Matches: 656, Mismatches: 68, Indels: 68
0.83 0.09 0.09
Matches are distributed among these distances:
99 7 0.01
102 9 0.01
104 26 0.04
105 115 0.18
106 104 0.16
107 160 0.24
108 43 0.07
109 48 0.07
110 72 0.11
111 72 0.11
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (105 bp):
TTTTTTTAATAAATTGATTTATTATCTTTTGCGGCGCTTTTATAAAAAACGCCGCAAAAAATTAT
TTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAA
Found at i:57706815 original size:216 final size:216
Alignment explanation
Indices: 57705962--57706946 Score: 1375
Period size: 215 Copynumber: 4.5 Consensus size: 216
57705952 AAACTTGAGG
* * *
57705962 GTTTTTAATAAAAAAAGCCGCAAAAAATTATTTCAGTTTGAAAAAATGACGTCGTTTTGCTGTGC
1 GTTTTT-ATGAAAAACGCCGCAAAAAATTATTTCAGTTTGAAAAAATGACGCCGTTTTGCTGTGC
*
57706027 TAAAAATTTTTTATTTTGTTTTTTTATAAATTGATTTATTTTTGTGGCGCTTTTATAAAAAACGC
65 TAAAAATTTTTTA--TTGTTTTTTTATAAATTGATTTATTTTTGCGGCGCTTTTATAAAAAACGC
* *
57706092 CGCAAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGATATGCT-AATTTTTTTAAAAT
128 CGCAAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTT-TAAT
57706156 AAATTGATTTATTATCTTTTGCGGC
192 AAATTGATTTATTATCTTTTGCGGC
* * *
57706181 GTTTTTATGAAAAACGTCGCAAAAAATTATTTCAGTTTGAAAAAATGACGTCATTTTGCTGTGCT
1 GTTTTTATGAAAAACGCCGCAAAAAATTATTTCAGTTTGAAAAAATGACGCCGTTTTGCTGTGCT
*
57706246 AAAATTTTTTTATTGTTTTTTTATAAATTGATTTATTTTTGCGGCGCTTTTATAAAAAACGCCG-
66 AAAAATTTTTTATTGTTTTTTTATAAATTGATTTATTTTTGCGGCGCTTTTATAAAAAACGCCGC
* * *
57706310 GAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTAAGCTAAAATTTTTTTAATAAAT
131 AAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAAT
57706375 TGATTTATTATCTTTTGCGGC
196 TGATTTATTATCTTTTGCGGC
* * *
57706396 GCTTTTATAAAAAACGCCGCAAAAAAATTTATTTC-GTTTTGAACAAAATGACGCCGTTTTGCTA
1 GTTTTTATGAAAAACGCCGC-AAAAAA-TTATTTCAG-TTTGAA-AAAATGACGCCGTTTTGCTG
* * ** *** * *
57706460 AG-TTAAAATTTTTT-TAATAAATTGAT---TT-A-TTATCTTTTGCGGTGCTTTTATAAAAAAC
62 TGCTAAAAATTTTTTATTGTTTTTTTATAAATTGATTTAT-TTTTGCGGCGCTTTTATAAAAAAC
57706518 GCCGCAAAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAATTTTTTTT
126 GCCGC-AAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCT-AAATTTTTTTT
57706583 AATAAATTGATTTATTATCTTTTGCGGC
189 AATAAATTGATTTATTATCTTTTGCGGC
* *
57706611 GTTTTTTATGACAAACGCCGCAAAAAATTATTTCAGTTTGAAAAAATGACGCCATTTTGCTGTGC
1 G-TTTTTATGAAAAACGCCGCAAAAAATTATTTCAGTTTGAAAAAATGACGCCGTTTTGCTGTGC
* *
57706676 TAAAAATTTTTTATT-TTTTTTTATAAATTGATTTATTTTTGCTGTGCTTTTATAAAAAACGCCG
65 TAAAAATTTTTTATTGTTTTTTTATAAATTGATTTATTTTTGCGGCGCTTTTATAAAAAACGCCG
* * *
57706740 CAAAAAATTTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAA
130 CAAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAA
57706805 TTGATTTATTATCTTTTGCGGC
195 TTGATTTATTATCTTTTGCGGC
* * * *
57706827 GTTTTACAT-AAAAACGCCACAAAAAATTATTTCA-TTTCCAACAAAATGACGCCGTTTTGCTAT
1 GTTTT-TATGAAAAACGCCGCAAAAAATTATTTCAGTTT-GAA-AAAATGACGCCGTTTTGCTGT
* *
57706890 GATAAAAATTTTTTATTTTGCTTTTTTTATAAATTGATTTATTTTTGCGGCGTTTTT
63 GCTAAAAATTTTTTA--TTG-TTTTTTTATAAATTGATTTATTTTTGCGGCGCTTTT
57706947 TGAACAAAAT
Statistics
Matches: 685, Mismatches: 56, Indels: 49
0.87 0.07 0.06
Matches are distributed among these distances:
211 4 0.01
212 28 0.04
213 21 0.03
214 77 0.11
215 165 0.24
216 163 0.24
217 69 0.10
218 115 0.17
219 10 0.01
220 33 0.05
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (216 bp):
GTTTTTATGAAAAACGCCGCAAAAAATTATTTCAGTTTGAAAAAATGACGCCGTTTTGCTGTGCT
AAAAATTTTTTATTGTTTTTTTATAAATTGATTTATTTTTGCGGCGCTTTTATAAAAAACGCCGC
AAAAAAATTATTTCGTTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAAT
TGATTTATTATCTTTTGCGGC
Found at i:57707036 original size:187 final size:184
Alignment explanation
Indices: 57706756--57707117 Score: 627
Period size: 187 Copynumber: 2.0 Consensus size: 184
57706746 ATTTATTTCA
57706756 TTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAATTGATTTATTATCTTT
1 TTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAATTGATTTATTATCTTT
57706821 TGCGGCGTTTTACATAAAAACGCCACAAAAAATTATTTCATTTCCAACAAAATGACGCCGTTTTG
66 TGCGGCGTTTTACATAAAAACGCCACAAAAAATTATTTCATTTCCAACAAAATGACGCCGTTTTG
57706886 CTATGATAAAAATTTTTTATTTTGCTTTTTTTATAAATTGATTTATTTTTGCGGCGTT
131 CTATGATAAAAA-TTTTTATTTTG--TTTTTTATAAATTGATTT-TTTTTGCGGCGTT
* *
57706944 TTTTGAACAAAATGACGCCGTTTTGCTATGCTAAA-TTTTTTTAATATATTGATTTATTATCTTT
1 TTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAATTGATTTATTATCTTT
* * *
57707008 TGCGGCGTTTTTCATTAAAACGCCACAAAAAATTATTTCATTTTCAACAAAATGACGCCGTTTTG
66 TGCGGCGTTTTACATAAAAACGCCACAAAAAATTATTTCATTTCCAACAAAATGACGCCGTTTTG
*
57707073 CTATGCTAAAAATTTTTATTTTGTTTTTTATAAATTGATTTTTTT
131 CTATGATAAAAATTTTTATTTTGTTTTTTATAAATTGATTTTTTT
57707118 ATAAAATAAA
Statistics
Matches: 168, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
183 4 0.02
184 18 0.11
186 11 0.07
187 101 0.60
188 34 0.20
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (184 bp):
TTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTAATAAATTGATTTATTATCTTT
TGCGGCGTTTTACATAAAAACGCCACAAAAAATTATTTCATTTCCAACAAAATGACGCCGTTTTG
CTATGATAAAAATTTTTATTTTGTTTTTTATAAATTGATTTTTTTTGCGGCGTT
Found at i:57707740 original size:22 final size:22
Alignment explanation
Indices: 57707685--57707740 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
57707675 AACCTTAAAT
57707685 CTAAACCCTT-AATCCATAATCC
1 CTAAA-CCTTAAATCCATAATCC
** * *
57707707 CTAATTCATAAATCCATACTCC
1 CTAAACCTTAAATCCATAATCC
57707729 CTAAACCTTAAA
1 CTAAACCTTAAA
57707741 ATATGAACTC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (22 bp):
CTAAACCTTAAATCCATAATCC
Found at i:57707940 original size:16 final size:15
Alignment explanation
Indices: 57707919--57707977 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 15
57707909 CCCTAACTTT
57707919 TAACCCCTAATACATC
1 TAACCCCTAA-ACATC
*
57707935 TAACCCCTAAACCTC
1 TAACCCCTAAACATC
* *
57707950 TAACCCTCTAACCCTC
1 TAACCC-CTAAACATC
*
57707966 TAACCCTTAAAC
1 TAACCCCTAAAC
57707978 CTTAAATCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 14 0.37
16 24 0.63
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (15 bp):
TAACCCCTAAACATC
Found at i:57707955 original size:31 final size:31
Alignment explanation
Indices: 57707919--57707979 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
57707909 CCCTAACTTT
57707919 TAACCC-CTAATACATCTAACCCCTAAACCTC
1 TAACCCTCTAA-ACATCTAACCCCTAAACCTC
* * *
57707950 TAACCCTCTAACCCTCTAACCCTTAAACCT
1 TAACCCTCTAAACATCTAACCCCTAAACCT
57707980 TAAATCCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.25
Consensus pattern (31 bp):
TAACCCTCTAAACATCTAACCCCTAAACCTC
Found at i:57708036 original size:15 final size:15
Alignment explanation
Indices: 57708003--57708042 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
57707993 TTAAACAATT
*
57708003 ATCCCT-AATCCATA
1 ATCCCTAAACCCATA
57708017 ATCCCTAAACCCATA
1 ATCCCTAAACCCATA
*
57708032 CTCCCTAAACC
1 ATCCCTAAACC
57708043 TTAAAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (15 bp):
ATCCCTAAACCCATA
Found at i:57708278 original size:44 final size:44
Alignment explanation
Indices: 57708213--57708325 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 44
57708203 ACCCCTGAAT
* * * *
57708213 CCCTAAA-CCCTAAATCCCTAACTATTAACCCTT-AATGTCTAAC
1 CCCTAAACCCCTAAACCCCTAACCATTAAACCTTAAATCTC-AAC
*
57708256 CCCTAAACCCCT-AACCCTCTAACCCTTAAACCTTAAATCTCAAC
1 CCCTAAACCCCTAAACCC-CTAACCATTAAACCTTAAATCTCAAC
* *
57708300 CCTTAAA-CCCTAAAACCCTAATCCAT
1 CCCTAAACCCCTAAACCCCTAA-CCAT
57708326 ACTCCCTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
43 19 0.33
44 33 0.58
45 5 0.09
ACGTcount: A:0.35, C:0.39, G:0.01, T:0.25
Consensus pattern (44 bp):
CCCTAAACCCCTAAACCCCTAACCATTAAACCTTAAATCTCAAC
Found at i:57708339 original size:15 final size:15
Alignment explanation
Indices: 57708315--57708350 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
57708305 AACCCTAAAA
57708315 CCCT-AATCCATACT
1 CCCTAAATCCATACT
57708329 CCCTAAATCCATACT
1 CCCTAAATCCATACT
57708344 CCCTAAA
1 CCCTAAA
57708351 CCTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (15 bp):
CCCTAAATCCATACT
Found at i:57708571 original size:15 final size:15
Alignment explanation
Indices: 57708536--57708610 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
57708526 CCTTAACTTT
*
57708536 TAACCCCTAATACGTC
1 TAACCCCTAA-ACCTC
57708552 T-ACCCCTAAACCTC
1 TAACCCCTAAACCTC
*
57708566 TAACCCTCT-AACCCC
1 TAACCC-CTAAACCTC
* * *
57708581 AAAACCTCTAACCCTC
1 -TAACCCCTAAACCTC
*
57708597 TAACCCTTAAACCT
1 TAACCCCTAAACCT
57708611 TAAATCCCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
14 5 0.11
15 29 0.64
16 11 0.24
ACGTcount: A:0.32, C:0.44, G:0.01, T:0.23
Consensus pattern (15 bp):
TAACCCCTAAACCTC
Found at i:57708573 original size:8 final size:8
Alignment explanation
Indices: 57708553--57708603 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
57708543 TAATACGTCT
57708553 ACCC-CTA
1 ACCCTCTA
*
57708560 AACCTCTA
1 ACCCTCTA
57708568 ACCCTCTA
1 ACCCTCTA
*
57708576 ACCC-CAA
1 ACCCTCTA
*
57708583 AACCTCTA
1 ACCCTCTA
57708591 ACCCTCTA
1 ACCCTCTA
57708599 ACCCT
1 ACCCT
57708604 TAAACCTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 8 0.22
8 28 0.78
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.20
Consensus pattern (8 bp):
ACCCTCTA
Found at i:57708608 original size:23 final size:23
Alignment explanation
Indices: 57708553--57708610 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
57708543 TAATACGTCT
57708553 ACCCCTAAACCTCTAACCCTCTA
1 ACCCCTAAACCTCTAACCCTCTA
*
57708576 ACCCCAAAACCTCTAACCCTCTA
1 ACCCCTAAACCTCTAACCCTCTA
*
57708599 ACCCTTAAACCT
1 ACCCCTAAACCT
57708611 TAAATCCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.21
Consensus pattern (23 bp):
ACCCCTAAACCTCTAACCCTCTA
Found at i:57708611 original size:7 final size:8
Alignment explanation
Indices: 57708557--57708614 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
57708547 ACGTCTACCC
57708557 CTAAACCT
1 CTAAACCT
*
57708565 CTAACCCT
1 CTAAACCT
*
57708573 CT-AACCC
1 CTAAACCT
*
57708580 CAAAACCT
1 CTAAACCT
*
57708588 CTAACCCT
1 CTAAACCT
*
57708596 CTAACCCT
1 CTAAACCT
57708604 -TAAACCT
1 CTAAACCT
57708611 -TAAA
1 CTAAA
57708615 TCCCAACCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
7 14 0.34
8 27 0.66
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.22
Consensus pattern (8 bp):
CTAAACCT
Found at i:57708667 original size:15 final size:15
Alignment explanation
Indices: 57708631--57708673 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
57708621 CCCTTAAACA
*
57708631 ATAATCCCT-AATCC
1 ATAATCCCTAAACCC
57708645 ATAATCCCTAAACCC
1 ATAATCCCTAAACCC
*
57708660 ATACTCCCTAAACC
1 ATAATCCCTAAACC
57708674 TTAAAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAATCCCTAAACCC
Found at i:57708875 original size:631 final size:616
Alignment explanation
Indices: 57707715--57709053 Score: 2378
Period size: 631 Copynumber: 2.1 Consensus size: 616
57707705 CCCTAATTCA
57707715 TAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAATCTTAAATTAATT
1 TAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAATCTTAAATTAATT
57707780 ATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAATTATATAAGAACA
66 ATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAATTATATAAGAACA
57707845 TATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCCGACCCCTAAATC
131 TATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCCGACCCCTAAATC
57707910 CCTAACTTTTAACCCCTAATACATCTAACCCCTAAACCTCTAACCCTCTAACCCTCTAACCCTTA
196 CCTAACTTTTAACCCCTAATACATCTAACCCCTAAACCTCTAACCCTCTAACCCTCTAACCCTTA
*
57707975 AACCTTAAATCCCAACCCTTAAACAATTATCCCTAATCCATAATCCCTAAACCCATACTCCCTAA
261 AACCTTAAATCCCAACCCTTAAACAATAATCCCTAATCCATAATCCCTAAACCCATACTCCCTAA
*
57708040 ACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTAAATAAATCATATACCCTAAACCAAAA
326 ACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATAAATCATATACCCTAAACCAAAA
57708105 CCCTAAATAAATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAA
391 CCCTAAATAAATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAA
57708170 AAAATTAATCTAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCCTAAC
456 AAAATTAATCTAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCCTAAC
*
57708235 TATTAACCCTTAATGTCTAACCCCTAAACCCCTAACCCTCTAACCCTTAAACCTTAAATCTCAAC
521 TATTAACCCTTAATGTCTAACCCCTAAACCACTAACCCTCTAACCCTTAAACCTTAAATCTCAAC
57708300 CCTTAAACCCTAAAACCCTAATCCATACTCCC
586 CCTTAAACCCTAAAA-CCTAATCCATACTCCC
57708332 TAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAATCTTAAATTAATT
1 TAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAATCTTAAATTAATT
57708397 ATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAATTATATAAGAACA
66 ATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAATTATATAAGAACA
57708462 TATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCCGACCCCTAAATC
131 TATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCCGACCCCTAAATC
* *
57708527 CTTAACTTTTAACCCCTAATACGTCT-ACCCCTAAACCTCTAACCCTCTAACCCCAAAACCTCTA
196 CCTAACTTTTAACCCCTAATACATCTAACCCCT--A-----AA-CCTCTAA---C----CCTCTA
57708591 ACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACAATAATCCCTAATCCATAATCCCTAA
246 ACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACAATAATCCCTAATCCATAATCCCTAA
*
57708656 ACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCGGCCTTAAATATTAAATAAATCATA
311 ACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATAAATCATA
57708721 TACCCTAAACCAAAACCCTAAATAAATTTATTATCATCTCTTTTCAATTATATAAGAACATATTT
376 TACCCTAAACCAAAACCCTAAATAAATTTATTATCATCTCTTTTCAATTATATAAGAACATATTT
57708786 AAAATATAAATTAAAAAAATTAATCTAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAA
441 AAAATATAAATTAAAAAAATTAATCTAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAA
*
57708851 CCTTAAATCCCTAACTATTAACCCTTAATGTCTAACCCCTAAACCACTAACCCTCTAACCCTTAA
506 CCCTAAATCCCTAACTATTAACCCTTAATGTCTAACCCCTAAACCACTAACCCTCTAACCCTTAA
57708916 ACCTTAAATCTCAACCCTTAAACCCTAAAACCTAATCCATACTCCC
571 ACCTTAAATCTCAACCCTTAAACCCTAAAACCTAATCCATACTCCC
* *
57708962 TAAAACCATACTCCCTAAACCTTAAAATA-GTAACTCCTAAA-CAGGCCTTAAATCTTAAATAAA
1 TAAATCCATACTCCCTAAACCTTAAAATATG-AACTCCTAAATCA-GCCTTAAATCTTAAATTAA
* * * *
57709025 TCATATACCCCAAACCAAAAACCCTAAAC
64 TTATATACCCTAAACTAAAAATCCTAAAC
57709054 TATAGTGAAA
Statistics
Matches: 692, Mismatches: 13, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
616 6 0.01
617 219 0.32
618 1 0.00
623 2 0.00
624 7 0.01
627 1 0.00
629 3 0.00
630 97 0.14
631 356 0.51
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (616 bp):
TAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAATCTTAAATTAATT
ATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAATTATATAAGAACA
TATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCCGACCCCTAAATC
CCTAACTTTTAACCCCTAATACATCTAACCCCTAAACCTCTAACCCTCTAACCCTCTAACCCTTA
AACCTTAAATCCCAACCCTTAAACAATAATCCCTAATCCATAATCCCTAAACCCATACTCCCTAA
ACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATAAATCATATACCCTAAACCAAAA
CCCTAAATAAATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAA
AAAATTAATCTAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCCTAAC
TATTAACCCTTAATGTCTAACCCCTAAACCACTAACCCTCTAACCCTTAAACCTTAAATCTCAAC
CCTTAAACCCTAAAACCTAATCCATACTCCC
Found at i:57708923 original size:617 final size:602
Alignment explanation
Indices: 57707528--57709053 Score: 2198
Period size: 631 Copynumber: 2.5 Consensus size: 602
57707518 AATATATTTG
*
57707528 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
1 ATTTATTATCATCTCTTTT-CAATTATATAAGAACATATTTAAAATATAAATT-AAAAA-AATTA
* * * ** *
57707593 ATCTAAA--CTCAAAA-CCTTAACCCGACCCCTAAATCAGTAAACCTTAAATCCCTAACTCTTAA
63 ATCTAAACGCCCAAAATCC-TAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAACTATTAA
* * * * *
57707655 CCCTTAACGTCTAACCCCTAAACCTTAA--ATCTAAACCCTT-AA---T---CCAT-AATCCCT-
127 CCCTTAATGTCTAACCCCTAAACCCTAACCCTCT-AACCCTTAAACCTTAAACCCTAAAACCCTA
*
57707709 A---AT--T-CATAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAAT
191 ATCCATACTCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAAT
57707768 CTTAAATTAATTATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAAT
256 CTTAAATTAATTATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAAT
57707833 TATATAAGAACATATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCC
321 TATATAAGAACATATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCC
57707898 GACCCCTAAATCCCTAACTTTTAACCCCTAATACATCTAACCCCTAAACCTCTAACCCTCTAACC
386 GACCCCTAAATCCCTAACTTTTAACCCCTAATACATCTAACCCCTAAACCTCTAACCCTCTAACC
*
57707963 CTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACAATTATCCCTAATCCATAATCCCTAAACC
451 CTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACAATAATCCCTAATCCATAATCCCTAAACC
*
57708028 CATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTTAAATAAATCATATAC
516 CATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATAAATCATATAC
57708093 CCTAAACCAAAACCCTAAATAA
581 CCTAAACCAAAACCCTAAATAA
57708115 ATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATTAATC
1 ATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATTAATC
*
57708180 TAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCCTAACTATTAACCCT
66 TAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAACTATTAACCCT
57708245 TAATGTCTAACCCCTAAACCCCTAACCCTCTAACCCTTAAACCTTAAATCTCAACCCTTAAACCC
131 TAATGTCTAACCCCTAAA-CCCTAACCCTCTAA--C-----CCTT--A----AA-CCTTAAACCC
57708310 TAAAACCCTAATCCATACTCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATC
181 TAAAACCCTAATCCATACTCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATC
57708375 AGCCTTAAATCTTAAATTAATTATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCT
246 AGCCTTAAATCTTAAATTAATTATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCT
57708440 CTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAA
311 CTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAA
* *
57708505 ACCCTAACCCGACCCCTAAATCCTTAACTTTTAACCCCTAATACGTCT-ACCCCTAAACCTCTAA
376 ACCCTAACCCGACCCCTAAATCCCTAACTTTTAACCCCTAATACATCTAACCCCT--A-----AA
57708569 CCCTCTAACCCCAAAACCTCTAACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACAATA
434 -CCTCTAA---C----CCTCTAACCCTCTAACCCTTAAACCTTAAATCCCAACCCTTAAACAATA
*
57708634 ATCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCGGC
491 ATCCCTAATCCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGC
57708699 CTTAAATATTAAATAAATCATATACCCTAAACCAAAACCCTAAATAA
556 CTTAAATATTAAATAAATCATATACCCTAAACCAAAACCCTAAATAA
57708746 ATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATTAATC
1 ATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATTAATC
57708811 TAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAACTATTAACCCT
66 TAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAACTATTAACCCT
57708876 TAATGTCTAACCCCTAAACCACTAACCCTCTAACCCTTAAACCTTAAATCTCAACCCTTAAACCC
131 TAATGTCTAACCCCTAAACC-CTAACCCTCTAACCCTTAAACCTT--A----AACCC-T--A---
* *
57708941 TAAAACCTAATCCATACTCCCTAAAACCATACTCCCTAAACCTTAAAATA-GTAACTCCTAAA-C
183 -AAACCCTAATCCATACTCCCTAAATCCATACTCCCTAAACCTTAAAATATG-AACTCCTAAATC
* * * * *
57709004 AGGCCTTAAATCTTAAATAAATCATATACCCCAAACCAAAAACCCTAAAC
246 A-GCCTTAAATCTTAAATTAATTATATACCCTAAACTAAAAATCCTAAAC
57709054 TATAGTGAAA
Statistics
Matches: 846, Mismatches: 27, Indels: 89
0.88 0.03 0.09
Matches are distributed among these distances:
584 12 0.01
585 5 0.01
586 99 0.12
587 25 0.03
588 2 0.00
589 3 0.00
590 1 0.00
595 4 0.00
602 2 0.00
606 1 0.00
609 3 0.00
610 6 0.01
611 1 0.00
614 2 0.00
616 7 0.01
617 224 0.26
618 3 0.00
619 1 0.00
622 1 0.00
623 7 0.01
624 12 0.01
626 1 0.00
627 1 0.00
629 4 0.00
630 102 0.12
631 317 0.37
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (602 bp):
ATTTATTATCATCTCTTTTCAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATTAATC
TAAACGCCCAAAATCCTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAACTATTAACCCT
TAATGTCTAACCCCTAAACCCTAACCCTCTAACCCTTAAACCTTAAACCCTAAAACCCTAATCCA
TACTCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAATCAGCCTTAAATCTTAA
ATTAATTATATACCCTAAACTAAAAATCCTAAACGAATTTATTATTATCTCTTTTACAATTATAT
AAGAACATATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCTAAAACCCTAACCCGACCC
CTAAATCCCTAACTTTTAACCCCTAATACATCTAACCCCTAAACCTCTAACCCTCTAACCCTCTA
ACCCTTAAACCTTAAATCCCAACCCTTAAACAATAATCCCTAATCCATAATCCCTAAACCCATAC
TCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATAAATCATATACCCTAA
ACCAAAACCCTAAATAA
Found at i:57708972 original size:15 final size:15
Alignment explanation
Indices: 57708952--57708980 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57708942 AAAACCTAAT
57708952 CCATACTCCCTAAAA
1 CCATACTCCCTAAAA
57708967 CCATACTCCCTAAA
1 CCATACTCCCTAAA
57708981 CCTTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATACTCCCTAAAA
Found at i:57708981 original size:14 final size:14
Alignment explanation
Indices: 57708946--57708982 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
57708936 AACCCTAAAA
*
57708946 CCTAATCCATACTC
1 CCTAAACCATACTC
57708960 CCTAAAACCATACTC
1 CCT-AAACCATACTC
57708975 CCTAAACC
1 CCTAAACC
57708983 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAACCATACTC
Found at i:57709399 original size:41 final size:42
Alignment explanation
Indices: 57709326--57709443 Score: 197
Period size: 41 Copynumber: 2.9 Consensus size: 42
57709316 TAAAATATTT
57709326 TTAGCGGCGCTTTTCC-AAAAACGCCGCTAAAGCCCC-AGCA
1 TTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCCCAAGCA
57709366 TTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCCCAAGCA
1 TTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCCCAAGCA
* *
57709408 TTAGCAGCGCTTTTTCAAAAAA-GCCGCTAAAGCCCC
1 TTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCCC
57709444 GAAAGGTAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
40 16 0.22
41 34 0.46
42 24 0.32
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (42 bp):
TTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCCCAAGCA
Found at i:57715229 original size:3 final size:3
Alignment explanation
Indices: 57715221--57715261 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
57715211 TAACAAGCTT
57715221 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57715262 TAAAGAGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57715750 original size:14 final size:14
Alignment explanation
Indices: 57715723--57715767 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
57715713 TTAATATGTA
*
57715723 AAATATACACATAT
1 AAATATATACATAT
* *
57715737 AAGTATGTACATAT
1 AAATATATACATAT
*
57715751 AAATATATACTTAT
1 AAATATATACATAT
57715765 AAA
1 AAA
57715768 AATTTAGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (14 bp):
AAATATATACATAT
Found at i:57715814 original size:43 final size:41
Alignment explanation
Indices: 57715739--57715823 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 41
57715729 ACACATATAA
*
57715739 GTATGTACATATAAATATATACTTATAAAAATTTAGAAAATAT
1 GTATGTACATATAAATATATA-GTATAAAAA-TTAGAAAATAT
* *
57715782 GTATGTAGATATAAATATAT-GTATACACAAATTATAAAATAT
1 GTATGTACATATAAATATATAGTATA-A-AAATTAGAAAATAT
57715824 ATATAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 4 0.11
42 11 0.30
43 22 0.59
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (41 bp):
GTATGTACATATAAATATATAGTATAAAAATTAGAAAATAT
Found at i:57715922 original size:22 final size:22
Alignment explanation
Indices: 57715897--57715957 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
57715887 ATATATATAC
* *
57715897 ATATATGTGTATATAATAAGAT
1 ATATATATATATATAATAAGAT
57715919 ATATATATATATATAATAAGAT
1 ATATATATATATATAATAAGAT
*
57715941 ATA-A-AGATATATAATAA
1 ATATATATATATATAATAA
57715958 TTATAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 12 0.33
21 1 0.03
22 23 0.64
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (22 bp):
ATATATATATATATAATAAGAT
Found at i:57715942 original size:10 final size:10
Alignment explanation
Indices: 57715907--57715966 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
57715897 ATATATGTGT
57715907 ATATAATAAG
1 ATATAATAAG
*
57715917 ATATATATATAT
1 ATATA-ATA-AG
57715929 ATATAATAAG
1 ATATAATAAG
*
57715939 ATATAA-AGAT
1 ATATAATA-AG
57715949 ATATAATAA-
1 ATATAATAAG
*
57715958 TTATAATAA
1 ATATAATAA
57715967 TAATAACAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
9 9 0.21
10 20 0.48
11 7 0.17
12 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
ATATAATAAG
Found at i:57715942 original size:20 final size:21
Alignment explanation
Indices: 57715906--57715957 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
57715896 CATATATGTG
* *
57715906 TATATAATAAGATATATATATA
1 TATATAATAAGA-ATATAAAGA
57715928 TATATAATAAG-ATATAAAGA
1 TATATAATAAGAATATAAAGA
57715948 TATATAATAA
1 TATATAATAA
57715958 TTATAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 17 0.61
22 11 0.39
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
TATATAATAAGAATATAAAGA
Found at i:57715988 original size:26 final size:25
Alignment explanation
Indices: 57715959--57716019 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
57715949 ATATAATAAT
57715959 TATAATAATAA-TAACAATAAGACAAA
1 TATAATAATAATTAA-AATAAGA-AAA
*
57715985 TATAATCAA-AATTTAAATAAGAAAA
1 TATAAT-AATAATTAAAATAAGAAAA
57716010 TATAA-AATAA
1 TATAATAATAA
57716020 AAATATAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 8 0.26
26 15 0.48
27 4 0.13
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (25 bp):
TATAATAATAATTAAAATAAGAAAA
Found at i:57716336 original size:40 final size:40
Alignment explanation
Indices: 57716292--57716428 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
57716282 GCGTTTGGAT
* **
57716292 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTAG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTCC
* * * *
57716332 AAAAAACGCCACTAAAGATCTAGTATTAGCGGCGTTTTCC
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTCC
* *
57716372 AAAAAACGCCGTTAAAAAT-GAGCATTAGCGGCGTTTTCC
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTCC
* *
57716411 AAAAAGCGCCGCAAAAAA
1 AAAAAACGCCGCTAAAAA
57716429 CCTAAGCACA
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 33 0.40
40 49 0.60
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTCC
Found at i:57717930 original size:22 final size:22
Alignment explanation
Indices: 57717905--57717946 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57717895 ATTAAATGAT
*
57717905 TTTAAGGTTTAGGGATTATGTG
1 TTTAAGGATTAGGGATTATGTG
*
57717927 TTTAGGGATTAGGGATTATG
1 TTTAAGGATTAGGGATTATG
57717947 GATTATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (22 bp):
TTTAAGGATTAGGGATTATGTG
Found at i:57717961 original size:14 final size:14
Alignment explanation
Indices: 57717910--57717958 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
57717900 ATGATTTTAA
57717910 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
*
57717924 GTGTTTAGGGATTAG
1 G-GTTTAGGGATTAT
* *
57717939 GGATTATGGATTAT
1 GGTTTAGGGATTAT
57717953 GGTTTA
1 GGTTTA
57717959 TGGTTTAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:57717977 original size:14 final size:15
Alignment explanation
Indices: 57717960--57718009 Score: 66
Period size: 14 Copynumber: 3.3 Consensus size: 15
57717950 TATGGTTTAT
57717960 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
57717974 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
57717989 GGTTATAAGGGGTTAGG
1 GGTT-TAA-GGGTTAGG
57718006 GGTT
1 GGTT
57718010 ATGGGGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 11 0.35
15 6 0.19
16 3 0.10
17 11 0.35
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:57717979 original size:21 final size:21
Alignment explanation
Indices: 57717953--57717992 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57717943 TATGGATTAT
*
57717953 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGTTTAAGGGTTGG
*
57717974 GGTTTAAGGTTTAGGGGTT
1 GGTTTAAGGTTTAAGGGTT
57717993 ATAAGGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAGGGTTGG
Found at i:57718006 original size:17 final size:16
Alignment explanation
Indices: 57717960--57718011 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 16
57717950 TATGGTTTAT
57717960 GGTT-TAAGGGTT-GG
1 GGTTATAAGGGTTAGG
*
57717974 GGTT-TAAGGTTTAGG
1 GGTTATAAGGGTTAGG
57717989 GGTTATAAGGGGTTAGG
1 GGTTATAA-GGGTTAGG
57718006 GGTTAT
1 GGTTAT
57718012 GGGGTTTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 11 0.33
15 6 0.18
16 3 0.09
17 13 0.39
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (16 bp):
GGTTATAAGGGTTAGG
Found at i:57723109 original size:13 final size:13
Alignment explanation
Indices: 57723091--57723117 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57723081 AATTTTTATA
57723091 TTTTTTTAAATAT
1 TTTTTTTAAATAT
57723104 TTTTTTTAAATAT
1 TTTTTTTAAATAT
57723117 T
1 T
57723118 ATGTTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTTTAAATAT
Found at i:57723291 original size:43 final size:42
Alignment explanation
Indices: 57723143--57723287 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
57723133 TTTTTGCTAG
* *
57723143 AAGCGTCGCTAAAGGTTTGGGTTTATAGCGGCATTTGT-GATAA
1 AAGCGCCGCTAAAGGTTTGGGCTT-TAGCGGCATTTGTGGA-AA
* *
57723186 AAGCGCCGCTAAAGGTTTCGGTCTTTAGCGGCATTTATGGAAA
1 AAGCGCCGCTAAAGGTTT-GGGCTTTAGCGGCATTTGTGGAAA
** * *
57723229 AAGCATCGCTAAAGGTCTTGGGCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGT-TTGGGCTTTAGCGGCATTTGTGGAAA
*
57723272 AAGTGCCGCTAAAGGT
1 AAGCGCCGCTAAAGGT
57723288 CTTGTAGAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
43 78 0.91
44 8 0.09
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTTTGGGCTTTAGCGGCATTTGTGGAAA
Found at i:57724088 original size:5 final size:5
Alignment explanation
Indices: 57724078--57724112 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
57724068 AAAACAAACA
57724078 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA
57724113 GAAAATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:57724117 original size:21 final size:21
Alignment explanation
Indices: 57724077--57724119 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57724067 TAAAACAAAC
*
57724077 AAAAATAAAATAAAATAAAAT
1 AAAAATAAAATAAAAGAAAAT
57724098 AAAAATAAAA-ATAAAGAAAAT
1 AAAAATAAAATA-AAAGAAAAT
57724119 A
1 A
57724120 CAAAGAACGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAATAAAATAAAAGAAAAT
Found at i:57728467 original size:35 final size:35
Alignment explanation
Indices: 57728419--57728487 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
57728409 TTTGAAAAAT
*
57728419 GGATCATGTCCAGTAAGTTAGGACACAATCTTTTG
1 GGATCATGCCCAGTAAGTTAGGACACAATCTTTTG
*
57728454 GGATCATGCCCAGTAAGTTAGGACACGATCTTTT
1 GGATCATGCCCAGTAAGTTAGGACACAATCTTTT
57728488 CTTAATTCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (35 bp):
GGATCATGCCCAGTAAGTTAGGACACAATCTTTTG
Found at i:57729138 original size:25 final size:27
Alignment explanation
Indices: 57729070--57729149 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 27
57729060 GAAAAGATAT
*
57729070 ATAATTATATAATAATAATATATAATAAG
1 ATAAATATA-AATAA-AATATATAATAAG
** *
57729099 ATAAATATATTTAAAATTTA-AATAAG
1 ATAAATATAAATAAAATATATAATAAG
57729125 -TAAATATAAATAAAATATAGTAATA
1 ATAAATATAAATAAAATATA-TAATA
57729150 GTAATACTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 16 0.38
26 6 0.14
27 9 0.21
28 3 0.07
29 8 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
ATAAATATAAATAAAATATATAATAAG
Found at i:57731786 original size:8 final size:8
Alignment explanation
Indices: 57731775--57731823 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
57731765 TTAAATTTTA
57731775 ATAAAAAT
1 ATAAAAAT
57731783 ATAAAAAT
1 ATAAAAAT
*
57731791 AGAAAACAT
1 ATAAAA-AT
57731800 ATAAAATAT
1 ATAAAA-AT
*
57731809 ATAGAAAT
1 ATAAAAAT
57731817 ATAAAAA
1 ATAAAAA
57731824 AATTATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 21 0.60
9 14 0.40
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (8 bp):
ATAAAAAT
Found at i:57731803 original size:17 final size:16
Alignment explanation
Indices: 57731777--57731823 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
57731767 AAATTTTAAT
57731777 AAAAATATAAAAATAG
1 AAAAATATAAAAATAG
*
57731793 AAAACATATAAAATATAT
1 AAAA-ATATAAAA-ATAG
*
57731811 AGAAATATAAAAA
1 AAAAATATAAAAA
57731824 AATTATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 16 0.59
18 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (16 bp):
AAAAATATAAAAATAG
Found at i:57731818 original size:10 final size:9
Alignment explanation
Indices: 57731775--57731834 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 9
57731765 TTAAATTTTA
57731775 ATAAAA-AT
1 ATAAAATAT
57731783 ATAAAA-AT
1 ATAAAATAT
* *
57731791 AGAAAACAT
1 ATAAAATAT
57731800 ATAAAATAT
1 ATAAAATAT
57731809 ATAGAAATAT
1 ATA-AAATAT
*
57731819 A-AAAAAATT
1 ATAAAATA-T
57731828 ATAAAAT
1 ATAAAAT
57731835 TTTATAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 17 0.40
9 15 0.35
10 11 0.26
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (9 bp):
ATAAAATAT
Found at i:57731854 original size:29 final size:30
Alignment explanation
Indices: 57731818--57731901 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
57731808 TATAGAAATA
*
57731818 TAAAAAAATTATAAAATTTTATAAAGTT-G
1 TAAAAAAATTATAAAATTTTATAAAATTCG
* **
57731847 TAAGAAAATTAT-AAATAAATATAAAATTCG
1 TAAAAAAATTATAAAAT-TTTATAAAATTCG
57731877 TAAAAAAATTATAAAAATTATTATA
1 TAAAAAAATTAT-AAAATT-TTATA
57731902 CCAAAAGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 4 0.09
29 19 0.44
30 12 0.28
32 8 0.19
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (30 bp):
TAAAAAAATTATAAAATTTTATAAAATTCG
Found at i:57732088 original size:27 final size:26
Alignment explanation
Indices: 57732045--57732097 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
57732035 TATTTATTCT
57732045 AATTTTAATAAATTTTAAATACTTTTA
1 AATTTTAATAAATTTTAAA-ACTTTTA
*
57732072 AATTTTAAT-AATATTTATAACTTTTA
1 AATTTTAATAAAT-TTTAAAACTTTTA
57732098 TTGATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTTTAATAAATTTTAAAACTTTTA
Found at i:57732424 original size:10 final size:10
Alignment explanation
Indices: 57732406--57732491 Score: 54
Period size: 10 Copynumber: 8.7 Consensus size: 10
57732396 CCCCTACTCC
57732406 TATAAAAAAT
1 TATAAAAAAT
*
57732416 TAGAAAAAAAAT
1 T--ATAAAAAAT
57732428 TATAAAAAAT
1 TATAAAAAAT
*
57732438 CAT-AAAAA-
1 TATAAAAAAT
57732446 -ATAAAAAAT
1 TATAAAAAAT
* **
57732455 TGTAAAATTT
1 TATAAAAAAT
*
57732465 TAT-AATAAT
1 TATAAAAAAT
*
57732474 CATTAAAAAAT
1 TA-TAAAAAAT
57732485 TATAAAA
1 TATAAAA
57732492 TGCATTGCTT
Statistics
Matches: 56, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
7 2 0.04
8 5 0.09
9 9 0.16
10 25 0.45
11 6 0.11
12 9 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:57734499 original size:18 final size:19
Alignment explanation
Indices: 57734476--57734517 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57734466 TGATAATTTT
**
57734476 AAAAATT-CAAAAATTAAA
1 AAAAATTGCAAAAAACAAA
57734494 AAAAATTGCAAAAAACAAA
1 AAAAATTGCAAAAAACAAA
57734513 AAAAA
1 AAAAA
57734518 ATGAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATTGCAAAAAACAAA
Found at i:57736195 original size:45 final size:45
Alignment explanation
Indices: 57736138--57736264 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 45
57736128 CATCTTTGAT
* *
57736138 CTGCTCCGCTGTCTATGCAGGAAGGCCAGATCTGTTATCTTCAAC
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTCAAC
** * * * * * * * *
57736183 CTGCTCCACTGTCTCCG-AGGGAGACGAGGT-TGGTGTCTTCGAT
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTCAAC
* *
57736226 CTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGTTATC
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATC
57736265 ATCACTGATC
Statistics
Matches: 59, Mismatches: 21, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
43 22 0.37
44 18 0.31
45 19 0.32
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTCAAC
Found at i:57736206 original size:133 final size:133
Alignment explanation
Indices: 57735764--57736170 Score: 656
Period size: 133 Copynumber: 3.1 Consensus size: 133
57735754 CTTAGAGAGA
* * * *
57735764 CAAGATCTGAAATCTTCAATCTATTCCATTGATGCCCAGGGA-AGTAGAATTATTGGCTTCAATG
1 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGA-TAGAATTATTGGCTTCAATG
* * *
57735828 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTCGACCTGCTTTGCTGTCTATGCAGG
65 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGATCTGCTTCGCTGTCTATGCAGG
57735893 AAGG
130 AAGG
57735897 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
* *
57735962 ACTCCACTGTAACTACAGGGAGGTAAAATCTGCCGTCTTTGATCTTCTTCGCTGTCTATGCAGGA
66 ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGATCTGCTTCGCTGTCTATGCAGGA
57736027 AGG
131 AGG
*
57736030 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
* * *
57736095 ACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCGCTGTCTATGCAGG
66 ACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCGTCTTTGATCTGCTTCGCTGTCTATGCAGG
57736159 AAGG
130 AAGG
*
57736163 CCAGATCT
1 CAAGATCT
57736171 GTTATCTTCA
Statistics
Matches: 256, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
132 1 0.00
133 254 0.99
134 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (133 bp):
CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGATCTGCTTCGCTGTCTATGCAGGA
AGG
Found at i:57737496 original size:6 final size:7
Alignment explanation
Indices: 57737479--57737511 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
57737469 GCCTCTCCAT
57737479 TTTTTCA
1 TTTTTCA
57737486 TTTTTCA
1 TTTTTCA
57737493 -TTTTCA
1 TTTTTCA
57737499 TCTTTTCA
1 T-TTTTCA
57737507 TTTTT
1 TTTTT
57737512 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:57742865 original size:18 final size:19
Alignment explanation
Indices: 57742842--57742883 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57742832 TGATAATTTT
**
57742842 AAAAATT-CAAAAATTAAA
1 AAAAATTGCAAAAAACAAA
57742860 AAAAATTGCAAAAAACAAA
1 AAAAATTGCAAAAAACAAA
57742879 AAAAA
1 AAAAA
57742884 ATGAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATTGCAAAAAACAAA
Found at i:57744452 original size:132 final size:132
Alignment explanation
Indices: 57744316--57745830 Score: 2348
Period size: 132 Copynumber: 11.5 Consensus size: 132
57744306 AAATAGGGTA
* * * * * *
57744316 ACTGGCTTCAATGTACTCCACTGTAAACACAGGGAGGTAAAATCCACTATCTTTAATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * *
57744381 CCACTGCTTAGAGAGACAAGATCTGAAATCTTCAACCTATTCCACTGCTGCCCAGGG-AGATAGA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
57744445 ATT
130 ATT
* * *
57744448 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCCGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
*
57744513 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57744578 TT
131 TT
* * *
57744580 ATTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
*
57744645 CTACTGCTTAGGGAGAAAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57744710 TT
131 TT
*
57744712 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
**
57744777 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57744842 TT
131 TT
* * *
57744844 ACTGGCTTCAATGTACTCCACTGCAACCTCAGTGAGGTAAAATTCACCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* *
57744909 CTATTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57744974 TT
131 TT
* * *
57744976 ACTGGCTTCAATGTACTCCACTGCAACCTCAGTGAGGTAAAATTCACCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
** * *
57745041 CTACTGCTTAGGGAGACAAGATCCAAAATATTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57745106 TT
131 TT
* * *
57745108 ATTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGGCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
** *
57745173 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57745238 TT
131 TT
* * * * * *
57745240 ATTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * * *
57745305 CTACTGCGTAGGGAGGCAATATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57745370 TT
131 TT
*
57745372 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* ** *
57745437 CTACTGCTTAGGGAGAAAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57745502 TT
131 TT
* * * * *
57745504 ATTGGCTTCAATGTAATCCATTGCAACCTCAGGAAGGTAAAATCTGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
** *
57745569 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAAAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57745634 TT
131 TT
* * * * *
57745636 ATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATATTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
* * * *
57745701 CTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCCATTCCGCTGCTGCCCAGAGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
57745766 TT
131 TT
* * * *
57745768 ACTGGCTTCAATGTTCTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTC
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTC
57745831 TGCTGTCTAT
Statistics
Matches: 1288, Mismatches: 94, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 1286 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
TT
Found at i:57744702 original size:44 final size:43
Alignment explanation
Indices: 57744401--57744834 Score: 116
Period size: 44 Copynumber: 9.9 Consensus size: 43
57744391 GAGAGACAAG
* *
57744401 ATCTGAAATCTTCAACCTATTCCACTGCTGCCCAGGGAGATAGAA
1 ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGGAGA-A-AA
* * * * *
57744446 TTACTG---GCTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAA
1 AT-CTGAAATCTTCAATCTACTCCACTGCT-GCC-CAGGGA-GAAAA
* * ** ** * * ** *
57744489 ACCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG
1 ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGGAGA-AAA
* * * *
57744533 ATCTGAAATCTTCAATCTATTCCACTGCTGTCCAGGGAAGTAGA
1 ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGG-AGAAAA
* * ** *
57744577 AT-T--ATTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAA
1 ATCTGAAAT--CTTCAATCTACTCCACTGCTGCC-CAGGGA-GAAAA
* * ** * * **
57744621 AT-TCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGAAAA
1 ATCTGA-AATCTTCAATCTACTCCACTGCTGCCCAGGGAGAAAA
* *
57744664 GATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
1 -ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGG-AG-AAAA
* * * ** *
57744710 TTACTG---GCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAA
1 AT-CTGAAATCTTCAATCTACTCCACTGCTGCC-CAGGGA-GAAAA
** ** * * ** *
57744753 ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG
1 ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGGAGA-AAA
** *
57744797 ATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGA
1 ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGGA
57744835 AGTAGAATTA
Statistics
Matches: 264, Mismatches: 97, Indels: 57
0.63 0.23 0.14
Matches are distributed among these distances:
41 2 0.01
42 6 0.02
43 68 0.26
44 124 0.47
45 53 0.20
46 10 0.04
47 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ATCTGAAATCTTCAATCTACTCCACTGCTGCCCAGGGAGAAAA
Found at i:57747187 original size:7 final size:7
Alignment explanation
Indices: 57747177--57747218 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
57747167 TCCATTTTAC
57747177 TTTTTCA
1 TTTTTCA
57747184 TTTTTCA
1 TTTTTCA
*
57747191 GTTTTCA
1 TTTTTCA
57747198 -TTTTCA
1 TTTTTCA
57747204 CTTTTTCA
1 -TTTTTCA
57747212 TTTTTCA
1 TTTTTCA
57747219 ACTCATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTTTCA
Found at i:57751916 original size:18 final size:19
Alignment explanation
Indices: 57751893--57751934 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57751883 TGATAATTTT
**
57751893 AAAAATT-CAAAAATTAAA
1 AAAAATTGCAAAAAACAAA
57751911 AAAAATTGCAAAAAACAAA
1 AAAAATTGCAAAAAACAAA
57751930 AAAAA
1 AAAAA
57751935 ATGAAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATTGCAAAAAACAAA
Found at i:57754392 original size:3 final size:3
Alignment explanation
Indices: 57754384--57754458 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
57754374 AACATGCATG
57754384 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57754432 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
57754459 GCAAATGACA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57757077 original size:44 final size:43
Alignment explanation
Indices: 57757000--57757099 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 43
57756990 CCGATATGTG
* * *
57757000 TTATCGTGTAAGACTAAGTCTTGGACGTTGGCATCA-GTTTGAAAT
1 TTAT-GTGTAAGACTAAGTCTTGGACATCGGCATCATATTTG--AT
*
57757045 TTATGTGTAAGACTATGT-TTGGGACATCGGCATCATATTTGAT
1 TTATGTGTAAGACTAAGTCTT-GGACATCGGCATCATATTTGAT
57757088 TT-TGTGTAAGAC
1 TTATGTGTAAGAC
57757100 CCTGTCTGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
42 10 0.20
43 6 0.12
44 25 0.51
45 8 0.16
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (43 bp):
TTATGTGTAAGACTAAGTCTTGGACATCGGCATCATATTTGAT
Found at i:57757503 original size:17 final size:18
Alignment explanation
Indices: 57757459--57757503 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
57757449 TATGAAATTT
57757459 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
57757477 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
57757494 T-ATATGAAAT
1 TGATATGAAAT
57757504 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:57758007 original size:3 final size:3
Alignment explanation
Indices: 57757987--57758082 Score: 81
Period size: 3 Copynumber: 31.3 Consensus size: 3
57757977 TTTAGCAATT
* * *
57757987 TTA TTA TTTA GTTG TTA TTA TTG TTA TTA TTA TTA TTA TTA GTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
57758034 TTA GTA TT- TCTA TTA TTA TT- TATA TTA TTG TTA CTTA TTA -TA TTA
1 TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA
57758079 TTA T
1 TTA T
57758083 CATATGATAG
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.05
3 61 0.81
4 10 0.13
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:57758204 original size:24 final size:24
Alignment explanation
Indices: 57758157--57758205 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57758147 TTATTTAATA
**
57758157 TATATATATATATAAATACCTTTT
1 TATATATATATATAAATAAATTTT
* *
57758181 TATATGTATATATATATAAATTTT
1 TATATATATATATAAATAAATTTT
57758205 T
1 T
57758206 CCTTTCTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
TATATATATATATAAATAAATTTT
Found at i:57758356 original size:15 final size:14
Alignment explanation
Indices: 57758323--57758370 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
57758313 TATATCTCAC
*
57758323 ATATACATTTTTTT
1 ATATATATTTTTTT
57758337 ATATATATTTTTTAT
1 ATATATATTTTTT-T
*
57758352 GTATATATTTTTTT
1 ATATATATTTTTTT
57758366 A-ATAT
1 ATATAT
57758371 TTATATGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 4 0.13
14 13 0.43
15 13 0.43
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
ATATATATTTTTTT
Found at i:57772597 original size:42 final size:42
Alignment explanation
Indices: 57772502--57772681 Score: 216
Period size: 42 Copynumber: 4.5 Consensus size: 42
57772492 AGTGATTCGG
* *
57772502 GGAATTAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATT-TAAAATACGGT
**
57772545 GGAATCAGCACTTAGCAACCCCTTTCACATTTACGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGT
* * *
57772587 GGGATCAGCACTTAGCAACCAC---CA-A--T--AATTCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGT
*
57772620 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGT
57772662 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
57772682 ACCAATGATT
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
33 20 0.17
34 5 0.04
36 3 0.03
37 1 0.01
38 1 0.01
39 3 0.03
41 6 0.05
42 48 0.41
43 30 0.26
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGGT
Found at i:57772632 original size:33 final size:33
Alignment explanation
Indices: 57772590--57772714 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
57772580 ATACGGTGGG
57772590 ATCAGCACTTAGCAACCACCAATAATTCGGGGA
1 ATCAGCACTTAGCAACCACCAATAATTCGGGGA
* *
57772623 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--AATTCGG-GGA
* **
57772665 ATCAGCACTTAGCAACCACCAATGATTCAAGGA
1 ATCAGCACTTAGCAACCACCAATAATTCGGGGA
*
57772698 ATCAGTACTTAGCAACC
1 ATCAGCACTTAGCAACC
57772715 CCCATTATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
33 34 0.45
34 6 0.08
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
41 9 0.12
42 18 0.24
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATAATTCGGGGA
Found at i:57772634 original size:75 final size:75
Alignment explanation
Indices: 57772545--57772717 Score: 274
Period size: 75 Copynumber: 2.3 Consensus size: 75
57772535 AAAATACGGT
* ** *
57772545 GGAATCAGCACTTAGCAACCCCTTTCACATTTACGATACGGTGGGATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
**
57772610 AATAATTCGG
66 AATAATTCAA
57772620 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
*
57772685 AATGATTCAA
66 AATAATTCAA
*
57772695 GGAATCAGTACTTAGCAACCCCC
1 GGAATCAGCACTTAGCAACCCCC
57772718 ATTATATTCA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (75 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
AATAATTCAA
Found at i:57777690 original size:9 final size:8
Alignment explanation
Indices: 57777674--57777699 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
57777664 CATAATTTAA
57777674 TATTTTTT
1 TATTTTTT
57777682 TATTTTTT
1 TATTTTTT
57777690 TATTTTTT
1 TATTTTTT
57777698 TA
1 TA
57777700 ATCAATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:57779037 original size:22 final size:24
Alignment explanation
Indices: 57779007--57779050 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
57778997 TTAATTTATT
*
57779007 AAATAATATATTTTTG-TAATTTC
1 AAATAATATATTTATGCTAATTTC
57779030 AAAT-ATATATTTATGCTAATT
1 AAATAATATATTTATGCTAATT
57779051 AAACGAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (24 bp):
AAATAATATATTTATGCTAATTTC
Found at i:57782849 original size:42 final size:42
Alignment explanation
Indices: 57782802--57782894 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
57782792 TTTGACGCTG
* **
57782802 CTCTGCTTCCCTCGCTGCAGCCTCTATTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
* * *
57782844 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
57782886 CTCTGCTTC
1 CTCTGCTTC
57782895 TTTTCCCGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.05, C:0.44, G:0.16, T:0.34
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
Found at i:57782895 original size:21 final size:21
Alignment explanation
Indices: 57782802--57782894 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
57782792 TTTGACGCTG
57782802 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
** **
57782823 CTCTATTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
57782844 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
57782865 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
57782886 CTCTGCTTC
1 CTCTGCTTC
57782895 TTTTCCCGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.05, C:0.44, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:57782961 original size:66 final size:67
Alignment explanation
Indices: 57782885--57783031 Score: 153
Period size: 66 Copynumber: 2.2 Consensus size: 67
57782875 CTCGCTGCCG
* *
57782885 CCTCTGCTTCTTTTC-CCGCCACATCTGCTCTAAGCTGCT-GCTGGAGATT-TTCATA-CTTTCG
1 CCTCAGCTTCTTCTCGCCGCCACATCTGCTCTAAGCTG-TAGCTGGAG-TTCTTCATATCTTT-G
57782946 TTGAA
63 TTGAA
* ** * * *
57782951 CCTCAGCTTC-TCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTG
1 CCTCAGCTTCTTCTCGCCGCCACATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTG
57783015 AA
66 AA
57783017 CCTCAGCTTC-TCTCG
1 CCTCAGCTTCTTCTCG
57783032 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
65 6 0.09
66 59 0.86
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.39
Consensus pattern (67 bp):
CCTCAGCTTCTTCTCGCCGCCACATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTG
AA
Found at i:57783048 original size:66 final size:66
Alignment explanation
Indices: 57782924--57783054 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
57782914 CTAAGCTGCT
* *
57782924 GCTGGAGATTTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGATTTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCTACTTTAAGTTGT
57782989 A
66 A
* * *
57782990 GCTGGAG-TTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCTACTTTAAGTT
1 GCTGGAGATT-TTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCTACTTTAAGTT
57783053 GT
64 GT
57783055 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 2 0.03
66 52 0.90
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (66 bp):
GCTGGAGATTTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCTACTTTAAGTTGT
A
Found at i:57786010 original size:25 final size:25
Alignment explanation
Indices: 57785958--57786014 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
57785948 AGTATTTCCT
* *
57785958 AATTATGTAAGTTATTTATTACCCA
1 AATTATGTAAGTTATGTATTACCAA
* **
57785983 AATTATGTAAGTTGTGTATTATGAA
1 AATTATGTAAGTTATGTATTACCAA
57786008 AATTATG
1 AATTATG
57786015 CTATGTAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (25 bp):
AATTATGTAAGTTATGTATTACCAA
Found at i:57786028 original size:9 final size:9
Alignment explanation
Indices: 57786016--57786157 Score: 77
Period size: 9 Copynumber: 16.7 Consensus size: 9
57786006 AAAATTATGC
57786016 TATGTAAGT
1 TATGTAAGT
57786025 TATGTAAGT
1 TATGTAAGT
* **
57786034 CACATAAGT
1 TATGTAAGT
57786043 TATGTAAG-
1 TATGTAAGT
* * *
57786051 -AAGTTATT
1 TATGTAAGT
57786059 TATGTAAGT
1 TATGTAAGT
*
57786068 TAT-TTA-T
1 TATGTAAGT
*
57786075 TATGAAAGT
1 TATGTAAGT
*
57786084 TAAGTAAGT
1 TATGTAAGT
*
57786093 TATGTAATT
1 TATGTAAGT
*
57786102 TACG-AA-T
1 TATGTAAGT
* **
57786109 AAT-TAAAAA
1 TATGT-AAGT
*
57786118 AATGTAAGT
1 TATGTAAGT
57786127 TATGTAAG-
1 TATGTAAGT
57786135 T-TGTAAGT
1 TATGTAAGT
57786143 TATGTAAGT
1 TATGTAAGT
57786152 TATGTA
1 TATGTA
57786158 TAATATTAAT
Statistics
Matches: 97, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
7 16 0.16
8 9 0.09
9 71 0.73
10 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (9 bp):
TATGTAAGT
Found at i:57786141 original size:16 final size:16
Alignment explanation
Indices: 57786120--57786152 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57786110 ATTAAAAAAA
57786120 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
57786136 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
57786152 T
1 T
57786153 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:57786203 original size:22 final size:22
Alignment explanation
Indices: 57786178--57786229 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
57786168 TAACTAACTT
57786178 ATGTAATTTAAGTATAATATTA
1 ATGTAATTTAAGTATAATATTA
* *
57786200 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTAAGTATAATATTA
57786222 ATGTAATT
1 ATGTAATT
57786230 AGTTATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (22 bp):
ATGTAATTTAAGTATAATATTA
Found at i:57786267 original size:56 final size:56
Alignment explanation
Indices: 57786151--57786269 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 56
57786141 GTTATGTAAG
* *
57786151 TTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAAG
1 TTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATCTAAC
* * * **
57786207 TTATGTATAATATTAATGTAA-TTAGTTATGTAATTTATGTATTTTAATTAA-CTAAC
1 TTATGTATAATATTAAT-TAACTAACTTATGTAATTTAAGTATAAT-ATTAATCTAAC
57786263 TTATGTA
1 TTATGTA
57786270 ATTTAAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 46 0.85
57 8 0.15
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (56 bp):
TTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATCTAAC
Found at i:57786971 original size:21 final size:21
Alignment explanation
Indices: 57786947--57786994 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
57786937 AATTGAAGAA
57786947 ACAAATGATACAGAAGCAGAG
1 ACAAATGATACAGAAGCAGAG
* *
57786968 ACAAATGATGCAGAGGCAGAG
1 ACAAATGATACAGAAGCAGAG
57786989 ACAAAT
1 ACAAAT
57786995 TTCATGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.15, G:0.25, T:0.10
Consensus pattern (21 bp):
ACAAATGATACAGAAGCAGAG
Found at i:57788588 original size:9 final size:9
Alignment explanation
Indices: 57788560--57788603 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 9
57788550 ACATTATTAG
57788560 TTTTTTTTA
1 TTTTTTTTA
57788569 TTTCCTTTTTA
1 TTT--TTTTTA
57788580 TTTTTTTTA
1 TTTTTTTTA
57788589 TTTTTCTTATA
1 TTTTT-TT-TA
57788600 TTTT
1 TTTT
57788604 GGTCCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 14 0.45
10 2 0.06
11 15 0.48
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:57788930 original size:17 final size:19
Alignment explanation
Indices: 57788896--57788935 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
57788886 ATAAAACTAA
57788896 TTAATCTGAGCTTAAA-CC
1 TTAATCTGAGCTTAAACCC
*
57788914 TTAATCTGATC-TAAACCC
1 TTAATCTGAGCTTAAACCC
57788932 TTAA
1 TTAA
57788936 ATCACTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (19 bp):
TTAATCTGAGCTTAAACCC
Found at i:57788982 original size:15 final size:14
Alignment explanation
Indices: 57788949--57788987 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
57788939 ACTAACTCTT
57788949 AACCCTAAACCACA
1 AACCCTAAACCACA
* *
57788963 AACCCCAAACCCCTA
1 AACCCTAAACCAC-A
57788978 AACCCTAAAC
1 AACCCTAAAC
57788988 ATTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.08
Consensus pattern (14 bp):
AACCCTAAACCACA
Found at i:57789124 original size:93 final size:88
Alignment explanation
Indices: 57788970--57789222 Score: 364
Period size: 93 Copynumber: 2.8 Consensus size: 88
57788960 ACAAACCCCA
* *
57788970 AACCCCTAAA-CCCTAAACATTATTTAATATGTAAATTATAAAACACTAATCAATCTAAATCCTA
1 AACCCC-AAACCCCTAAACATTATTTAATATATAAATTA-AAAACACTAATTAATCTAAATCCTA
* *
57789034 AACCCTAATTGGACCCCGAATCACT
64 AACCCTAACTCGACCCCGAATCACT
*
57789059 AACCCCAAACCCCTAAACATTATTTATTAATATATATAAATTAAAAAAACTAATTAATCTAAATC
1 AACCCCAAACCCCTAAACATTA--T-TT-A-ATATATAAATTAAAAACACTAATTAATCTAAATC
57789124 CTAAACCCTAACTCGACCCCGAATCACT
61 CTAAACCCTAACTCGACCCCGAATCACT
* * *
57789152 AACCCCTAACCCCTAAACATTATTTAATATATCAATTAAAAACACTAATTAATCTAAACCCTAAA
1 AACCCCAAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAA
57789217 CCCTAA
66 CCCTAA
57789223 GCCTAAATCC
Statistics
Matches: 149, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
88 45 0.30
89 19 0.13
90 2 0.01
91 2 0.01
92 2 0.01
93 68 0.46
94 11 0.07
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (88 bp):
AACCCCAAACCCCTAAACATTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAA
CCCTAACTCGACCCCGAATCACT
Found at i:57789236 original size:21 final size:20
Alignment explanation
Indices: 57789205--57789243 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57789195 ACTAATTAAT
57789205 CTAAACCCTAAACCCTAAGC
1 CTAAACCCTAAACCCTAAGC
*
57789225 CTAAATCCCTAACCCCTAA
1 CTAAA-CCCTAAACCCTAA
57789244 ACAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.41, G:0.03, T:0.18
Consensus pattern (20 bp):
CTAAACCCTAAACCCTAAGC
Found at i:57789270 original size:15 final size:14
Alignment explanation
Indices: 57789247--57789280 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
57789237 CCCCTAAACA
*
57789247 ATATTATTTAATATT
1 ATATAATTTAATA-T
57789262 ATATAATTTAATAT
1 ATATAATTTAATAT
57789276 ATATA
1 ATATA
57789281 TTACTTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATAATTTAATAT
Found at i:57790058 original size:113 final size:113
Alignment explanation
Indices: 57789808--57790521 Score: 1043
Period size: 113 Copynumber: 6.3 Consensus size: 113
57789798 AGATAAAATG
* * *
57789808 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGAGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TACAGAAAC
* * *
57789873 GCCGCTAAAAACCCCCCAAAACTCAGAAAACGGTGCCATTGGGCTTAGGC
65 GCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
57789923 TTTTTGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
57789988 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * *
57790036 TTTTTACGGCGCTTTTAAAAAAACGCTGCTAAACACCTGAGCATTAGCGGCGCTTTTCAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* ** *
57790101 CCGCTAAAGACCCCCAAAACTCAGAAAACGGTGTTGTTTGGCTTAGGC
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * * * *
57790149 TTTTTGCGGCGCTTTTAACAAAATGCCGCTAAAAGACTTGAGAATTAGTGGCGCATAACAGAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCT-AAAGACCTGAGCATTAGCGGCGCTTTACAGAAAC
* * *
57790214 GCCGCGAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGTTTAGGC
65 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
57790263 TTTTTGCGGCGCTTTTAAAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCATTACAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* *
57790328 CCGCTAAAGACCCCAAAAACTCAGAAAACGATGCCGTTGGGTTTAGGC
66 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
57790376 TTTTTGCGGCGCTTTTAAAAAACCGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTATAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
* *
57790441 CCGCTAAAGACCCCCAAAAACTCAGAAAACGGTAG-CATTTGGCTTAGGC
66 CCGCTAAAGA-CCCCAAAAACTCAGAAAACGGT-GCCGTTGGGCTTAGGC
* *
57790490 TTTTTGCGGCGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
57790522 TGCTTATTTT
Statistics
Matches: 540, Mismatches: 56, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
113 311 0.58
114 176 0.33
115 53 0.10
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (113 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACG
CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:57790241 original size:227 final size:224
Alignment explanation
Indices: 57789808--57790521 Score: 1068
Period size: 227 Copynumber: 3.1 Consensus size: 224
57789798 AGATAAAATG
* *
57789808 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGAGGCGCTTATTCAGAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TTCAGAAAC
* *
57789873 GCCGCTAAAAACCCCCCAAAACTCAGAAAACGGTGCCATTGGGCTTAGGCTTTTTGCGGCGCTTT
65 GCCGCTAAAGA-CCCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTT
* *
57789938 TAGAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACACCGCTAAAGACCCCA
129 TA-AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCA
57790003 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
193 AAAACTCAGAAAACGGTG-CGTTGGGCTTAGGC
* * *
57790036 TTTTTACGGCGCTTTTAAAAAAACGCTGCTAAACACCTGAGCATTAGCGGCGCTTTTCAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAACG
** *
57790101 CCGCTAAAGACCCCCAAAACTCAGAAAACGGTGTTGTTTGGCTTAGGCTTTTTGCGGCGCTTTTA
66 CCGCTAAAGACCCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
* * * * * *
57790166 ACAAAATGCCGCTAAAAGACTTGAGAATTAGTGGCGCATAACAGAAACGCCGCGAAAGACCCCAA
131 A-AAAACGCCGCT-AAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAA
*
57790231 AAACTCAGAAAACGGTGTCGTTGGGTTTAGGC
194 AAACTCAGAAAACGGTG-CGTTGGGCTTAGGC
* * *
57790263 TTTTTGCGGCGCTTTTAAAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCATTACAGAAACG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAACG
* * *
57790328 CCGCTAAAGACCCCAAAAACTCAGAAAACGATGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTTTA
66 CCGCTAAAGACCCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
*
57790393 AAAAACCGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTATAGAAACGCCGCTAAAGACCCCCAA
131 AAAAA-CGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGA-CCCCAA
* *
57790458 AAACTCAGAAAACGGTAGCATTTGGCTTAGGC
194 AAACTCAGAAAACGGT-GCGTTGGGCTTAGGC
* *
57790490 TTTTTGCGGCGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
57790522 TGCTTATTTT
Statistics
Matches: 436, Mismatches: 45, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
225 1 0.00
226 104 0.24
227 280 0.64
228 51 0.12
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (224 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAACG
CCGCTAAAGACCCCCAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTTTTA
AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAAAA
ACTCAGAAAACGGTGCGTTGGGCTTAGGC
Found at i:57790614 original size:40 final size:39
Alignment explanation
Indices: 57790490--57790624 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 39
57790480 TGGCTTAGGC
* *
57790490 TTTTT-GCGGCGCTTTCAAATAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTAAA-AAACGCCGCTAATGCTTGA
* ** *
57790528 TTTTTAGCGGCGATTTTTAAAAAACGTCGCTAATAATCGA
1 TTTTTAGCGGCG-TTTTTAAAAAACGCCGCTAATGCTTGA
** *
57790568 CCTTTAGCGGCGTTTTCCT-AAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT--TAAAAAACGCCGCTAATGCTTGA
* *
57790608 TTTTTAGTGGAGTTTTT
1 TTTTTAGCGGCGTTTTT
57790625 TGTCTAATCG
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
38 6 0.08
39 23 0.31
40 45 0.60
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTAAAAAACGCCGCTAATGCTTGA
Found at i:57791470 original size:40 final size:40
Alignment explanation
Indices: 57791407--57791501 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
57791397 GTTTGGACGA
*
57791407 AAAACGCCGCTAAAAATCGAGCATTAGCTGCGCACAGC-AT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCAC-GCTAT
* * * *
57791447 AAAACGCCGCTAAATATCTAGCATTAGCGGCGCTCTCTAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCACGCTAT
57791487 AAAACGCCGC-AAAAA
1 AAAACGCCGCTAAAAA
57791502 GTCAGACCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.10
40 43 0.90
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCACGCTAT
Found at i:57791780 original size:114 final size:114
Alignment explanation
Indices: 57791680--57792406 Score: 1039
Period size: 114 Copynumber: 6.4 Consensus size: 114
57791670 CTTTTATTTG
** *
57791680 AAAGCGCCGCAAAATATCTTAACCAAAACGCAATGTTTGGTCTTGAGGTATATTAAAATTAGTGG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* * ** * *
57791745 CGCTTATGCAAAAACGCCGATAAAGCACAATATTAGCGATGCATTGTAA
66 CGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTATTATAA
* * * *
57791794 AAAACGCCGTAAAATATCTTAACCAAAACACAGCGTGTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* *
57791859 CGCTTATGCAAAAACG-TGACTAAAGCACAGTATTAGCGGCGCATTATAA
66 CGCTTATGCAAAAACGCCG-CTAAAGCACAGTATTAGCGGCGTATTATAA
* * *
57791908 AAGGCGCCGCAAAATATCTTAACTAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* * *
57791973 CGCTTATGGAAAAATGCCGCTAAAACACAGTATTAGCGGCGTATTATACA
66 CGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTATTATA-A
* *
57792023 AAA-CGCCGCAAAATATCTTAACCAAAATGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* *
57792087 CGCTTATGCAAAAACGCAGCTAAAGCACAGTATTAGCGGCGCATTATAA
66 CGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTATTATAA
*
57792136 AAAGCGCCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* * * *
57792201 CGCTTATGGAAAAACGCCGCTAAAGCATAGTATTAGCGGCGCATTATAC
66 CGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTATTATAA
* * *
57792250 AAA-CACCGCAAAATATCTTAACCAAAACGCAGTGTTTGATCTTGAGGTATATTAGAATTAGTGG
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* * * * * *
57792314 CGCTTATGAAAAAACGCCGCTAAATCACAGTATTAACGACGCT-TTGTGA
66 CGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCG-TATTATAA
*
57792363 AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTT
1 AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTT
57792407 AAGTTATAGA
Statistics
Matches: 552, Mismatches: 55, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
113 104 0.19
114 444 0.80
115 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (114 bp):
AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
CGCTTATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTATTATAA
Found at i:57792507 original size:227 final size:226
Alignment explanation
Indices: 57791680--57792527 Score: 795
Period size: 228 Copynumber: 3.7 Consensus size: 226
57791670 CTTTTATTTG
* ** * * * **
57791680 AAAGCGCCGCAAAATATCTTAACCAAAACGCAATGTTTGGTCTTGAGGTATATTAAAATTAGTGG
1 AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATGAGAATTAGCAG
** *
57791745 CGCTTAT-GCAAAAACGCCGA-TAAAGCACA-ATATTAGCGATGCATTGT--AAAAAACGCCGTA
66 CGCTTATAG-AAAAACGCC-ACTAAAGCACAGA-ATTAGCGGCGCATTATACAAAAAACG-C--A
* * * *
57791805 AAATATCTTAACCAAAACACAGCGTGTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAA
125 AAAAATCTTAACCAAAACGCAGCGT-TTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAA
* * *
57791870 AAACG-TGACTAAAGCACAGTATTAGCGGCGCATTATAA
189 AAACGCAG-CTAAAGCACAGTATTAACGACGCATTATAA
* * * * * * **
57791908 AAGGCGCCGCAAAATATCTTAACTAAAATGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATGAGAATTAGCAG
* * * * * * ** *
57791973 CGCTTATGGAAAAATGCCGCTAAAACACAGTATTAGCGGCGTATTATACAAAACGCCGCAAAATA
66 CGCTTATAGAAAAACGCCACTAAAGCACAGAATTAGCGGCGCATTATACAAAA-AACGCAAAAAA
* * *
57792038 TCTTAACCAAAATGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAACG
130 TCTTAACCAAAACGCAGCGTTT-GTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACG
* *
57792103 CAGCTAAAGCACAGTATTAGCGGCGCATTATAA
194 CAGCTAAAGCACAGTATTAACGACGCATTATAA
* * * * **
57792136 AAAGCGCCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATGAGAATTAGCAG
* * * * * * *
57792201 CGCTTATGGAAAAACGCCGCTAAAGCATAGTATTAGCGGCGCATTATACAAACACCGCAAAATAT
66 CGCTTATAGAAAAACGCCACTAAAGCACAGAATTAGCGGCGCATTATACAAAAAACGCAAAAAAT
*
57792266 CTTAACCAAAACGCAGTGTTTGATCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
131 CTTAACCAAAACGCAGCGTTTG-TCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
* * * * *
57792331 CGCTAAATCACAGTATTAACGACGCTTTGTGA
195 AGCTAAAGCACAGTATTAACGACGCATTATAA
*
57792363 AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGTTATA-GAGCCAA-TAGC
1 AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATGAG--AATTAGC
* * * *** *
57792426 AGCAG-TTGTAG-AAAATGCCATTATTTC-CCGCAATTAGCGGCGC-TTA-ACTAAAAAACGCCA
64 AGC-GCTTATAGAAAAACGCCACTAAAGCACAG-AATTAGCGGCGCATTATAC-AAAAAACG-CA
* * * *
57792486 AAAAATTTTAAATCGAAACGCAGCGTTTCGTCTTGAGCTATA
125 AAAAATCTT-AACCAAAACGCAGCGTTT-GTCTTGAGGTATA
57792528 GCGCGGTTAG
Statistics
Matches: 535, Mismatches: 68, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
224 2 0.00
225 10 0.02
226 33 0.06
227 179 0.33
228 302 0.56
229 2 0.00
230 5 0.01
231 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (226 bp):
AAAGCACCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAAGGTATATGAGAATTAGCAG
CGCTTATAGAAAAACGCCACTAAAGCACAGAATTAGCGGCGCATTATACAAAAAACGCAAAAAAT
CTTAACCAAAACGCAGCGTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCA
GCTAAAGCACAGTATTAACGACGCATTATAA
Found at i:57792977 original size:14 final size:14
Alignment explanation
Indices: 57792923--57792984 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
57792913 TAGGTTTAGT
*
57792923 GTTTGGGGTTTGAG
1 GTTTGGAGTTTGAG
57792937 AGTTTGAGAGTTTGAG
1 -GTTTG-GAGTTTGAG
** *
57792953 GTTTAAAGTTTAAG
1 GTTTGGAGTTTGAG
* *
57792967 GTTTGGGGTTTGGG
1 GTTTGGAGTTTGAG
57792981 GTTT
1 GTTT
57792985 AGGCCACTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 20 0.54
15 9 0.24
16 8 0.22
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (14 bp):
GTTTGGAGTTTGAG
Found at i:57793335 original size:20 final size:21
Alignment explanation
Indices: 57793306--57793348 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
57793296 CACGCTTTAG
*
57793306 GATTAAATTATT-TTATTATT
1 GATTAAATTATTATAATTATT
*
57793326 GATTATATTATTATAATTATT
1 GATTAAATTATTATAATTATT
57793347 GA
1 GA
57793349 CCTTAAGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
GATTAAATTATTATAATTATT
Found at i:57796751 original size:45 final size:44
Alignment explanation
Indices: 57796702--57796805 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
57796692 TTTGAAAACT
*
57796702 ATGTTAAGCTATGTTAAAC-A-TTTTGAATGTTAAGCATAGTTTTGA
1 ATGTTAAGCTATGTTAAACTAGTTTTGAATGTTAA--ACA-TTTTGA
*
57796747 ATGTTAAGCTATGTTAAGCTATGTTTTGAATGTTAAACATTTTGA
1 ATGTTAAGCTATGTTAAACTA-GTTTTGAATGTTAAACATTTTGA
57796792 ATGTTAAGCATATG
1 ATGTTAAGC-TATG
57796806 AGATTCTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
45 33 0.62
46 7 0.13
48 13 0.25
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (44 bp):
ATGTTAAGCTATGTTAAACTAGTTTTGAATGTTAAACATTTTGA
Found at i:57796762 original size:10 final size:10
Alignment explanation
Indices: 57796747--57796771 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57796737 ATAGTTTTGA
57796747 ATGTTAAGCT
1 ATGTTAAGCT
57796757 ATGTTAAGCT
1 ATGTTAAGCT
57796767 ATGTT
1 ATGTT
57796772 TTGAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (10 bp):
ATGTTAAGCT
Found at i:57797215 original size:21 final size:20
Alignment explanation
Indices: 57797191--57797263 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
57797181 GTTTTGGGAC
57797191 TATTTATTTATATTTTCAGCG
1 TATTTATTTATATTTT-AGCG
* ***
57797212 TATTTAATATTATTGATATTATAT
1 TATTT-AT-TTA-T-ATTTTAGCG
57797236 TATTTATTTATATTTTTAGCG
1 TATTTATTTATA-TTTTAGCG
57797257 TATTTAT
1 TATTTAT
57797264 ATAAACATCT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 1 0.03
21 17 0.44
22 5 0.13
23 5 0.13
24 7 0.18
25 4 0.10
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (20 bp):
TATTTATTTATATTTTAGCG
Done.