Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 381 of 427
Found at i:110801100 original size:41 final size:38
Alignment explanation
Indices: 110800993--110801105 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 38
110800983 CGGATAATTT
*
110800993 GAAGTAATAATTTGACACCCAGTGTCTCATCAGCTAAACC
1 GAAGT-ATAA-TTGACACCCAGTGTCTCATCAACTAAACC
* ** * *
110801033 GAAGTA-AATTGGCACCCAGTACCTCATCGAATTAATCC
1 GAAGTATAATTGACACCCAGTGTCTCATC-AACTAAACC
*
110801071 GAAGTAGTAACTTGACACCCACTGTCTCATCAACT
1 GAAGTA-TAA-TTGACACCCAGTGTCTCATCAACT
110801106 CGAAGTCAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
37 17 0.29
38 14 0.24
39 1 0.02
40 10 0.17
41 16 0.28
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (38 bp):
GAAGTATAATTGACACCCAGTGTCTCATCAACTAAACC
Found at i:110804099 original size:19 final size:21
Alignment explanation
Indices: 110804072--110804112 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
110804062 CGAATACACC
*
110804072 AACAGAAGCTCG-AA-AGCTG
1 AACAAAAGCTCGTAAGAGCTG
110804091 AACAAAAGCTCGTAAGAGCTG
1 AACAAAAGCTCGTAAGAGCTG
110804112 A
1 A
110804113 TCCACCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (21 bp):
AACAAAAGCTCGTAAGAGCTG
Found at i:110804655 original size:17 final size:18
Alignment explanation
Indices: 110804625--110804666 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
110804615 AGTTAATCTA
*
110804625 TCAAATTAATTAATTT-TC
1 TCAAA-TAAATAATTTATC
110804643 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
110804661 -CAAATA
1 TCAAATA
110804667 TTCTAGGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:110805814 original size:21 final size:21
Alignment explanation
Indices: 110805789--110805853 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
110805779 GAAGGCTAAT
110805789 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
110805810 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
110805828 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
110805849 GAAGC
1 GAAGC
110805854 CCAAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:110805842 original size:39 final size:39
Alignment explanation
Indices: 110805733--110805871 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
110805723 ATCGTGATCT
* * * *
110805733 GAAGCCCGAAGTCTAACTGAAGCACATAATTGCAAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
110805772 GAAGCCCGAAGGCTAA-TGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
110805810 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
110805849 GAAGCCCAAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
110805872 TCATCAGAGC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 35 0.37
39 59 0.63
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:110813626 original size:21 final size:21
Alignment explanation
Indices: 110813598--110813683 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
110813588 CCTGATCAGT
* *
110813598 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTG
* * *
110813619 AAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
110813640 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
110813661 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
110813682 AT
1 AT
110813684 CGATAAAGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:110814075 original size:15 final size:15
Alignment explanation
Indices: 110814050--110814107 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
110814040 TCATGTATAT
110814050 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
110814066 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
110814081 AATAATTTCAATCAA
1 TATAAATTCAATCAA
110814096 TATAAATTCAAT
1 TATAAATTCAAT
110814108 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:110815320 original size:46 final size:47
Alignment explanation
Indices: 110815244--110815337 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
110815234 TTGCACATAG
*
110815244 TCACATATCACACACCGAAGCCATAGCCCAGCCATGGTCTTACACGGA
1 TCACATAT-ACACACCGAAGCCATAGCCCAGACATGGTCTTACACGGA
* * * * *
110815292 TCACATAT-CACACTGATGCCATATCCCAGATATGGTCTTATACGGA
1 TCACATATACACACCGAAGCCATAGCCCAGACATGGTCTTACACGGA
110815338 AGTACATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
46 32 0.80
48 8 0.20
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (47 bp):
TCACATATACACACCGAAGCCATAGCCCAGACATGGTCTTACACGGA
Found at i:110816738 original size:39 final size:38
Alignment explanation
Indices: 110816679--110816818 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 38
110816669 ATCGTGATCT
* * *
110816679 GAAGCCCGAAGTCTAGCTGAAGCACATAATTGCTAAAC
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
110816717 AGAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
1 -GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
*
110816756 GGAAGCCCGAAAGCTAACTGAAGCACATAAGTGCTAAAC
1 -GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
*
110816795 GAAAGCCCAAAGGCTAACTGAAGC
1 G-AAGCCCGAAGGCTAACTGAAGC
110816819 TCATCAGAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 92 0.99
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.14
Consensus pattern (38 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
Found at i:110824733 original size:2 final size:2
Alignment explanation
Indices: 110824722--110824760 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
110824712 ATTAAGTTAT
110824722 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110824761 AAGTAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:110825467 original size:2 final size:2
Alignment explanation
Indices: 110825460--110825498 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
110825450 TTATTATTTA
110825460 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110825499 GTAAGTGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110826234 original size:18 final size:19
Alignment explanation
Indices: 110826192--110826243 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
110826182 AAAGATCAAC
110826192 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
110826211 TGTTACTGTAT-ATTTGAT
1 TGTTACTGAATAATTTAAT
*
110826229 TTTTACTGAATAATT
1 TGTTACTGAATAATT
110826244 GACTGTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:110826245 original size:18 final size:18
Alignment explanation
Indices: 110826192--110826251 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
110826182 AAAGATCAAC
*
110826192 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
110826211 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
110826229 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
110826247 TGTTA
1 TGTTA
110826252 TTGGATAACT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 22 0.67
19 11 0.33
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:110826262 original size:26 final size:27
Alignment explanation
Indices: 110826233--110826289 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
110826223 TTTGATTTTT
* * *
110826233 ACTGAAT-AATTGACTGTTATTGGATA
1 ACTGAATCAATTGACTGATACTGAATA
*
110826259 ACTG-ATCAATTGATTGATACTGAATA
1 ACTGAATCAATTGACTGATACTGAATA
110826285 ACTGA
1 ACTGA
110826290 CTATTACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (27 bp):
ACTGAATCAATTGACTGATACTGAATA
Found at i:110830173 original size:12 final size:12
Alignment explanation
Indices: 110830141--110830174 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
110830131 CTGACCGTCT
110830141 TAATTTTTTATA
1 TAATTTTTTATA
*
110830153 TTATTTTTTATA
1 TAATTTTTTATA
110830165 TAATCTTTTT
1 TAAT-TTTTT
110830175 TAAAATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:110841842 original size:2 final size:2
Alignment explanation
Indices: 110841835--110841863 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
110841825 TTTCTTGAAA
110841835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110841864 ACACTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110850495 original size:18 final size:18
Alignment explanation
Indices: 110850472--110850558 Score: 102
Period size: 18 Copynumber: 4.8 Consensus size: 18
110850462 CGTTTATGGT
*
110850472 ACTATTCACGTATGCGGC
1 ACTATTCACGTATACGGC
* *
110850490 ACTATTCACGTATATGGT
1 ACTATTCACGTATACGGC
* *
110850508 ATTATTCACGTATACGAC
1 ACTATTCACGTATACGGC
*
110850526 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
* *
110850544 ATTGTTCACGTATAC
1 ACTATTCACGTATAC
110850559 AGTAGTTGGG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:110850514 original size:36 final size:36
Alignment explanation
Indices: 110850466--110850558 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
110850456 TACGACCGTT
* * *
110850466 TATGGTACTATTCACGTATGCGGCACTATTCACGTA
1 TATGGTATTATTCACGTATACGACACTATTCACGTA
110850502 TATGGTATTATTCACGTATACGACACTATTCACGTA
1 TATGGTATTATTCACGTATACGACACTATTCACGTA
* *
110850538 TACGGTATTGTTCACGTATAC
1 TATGGTATTATTCACGTATAC
110850559 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (36 bp):
TATGGTATTATTCACGTATACGACACTATTCACGTA
Found at i:110853140 original size:13 final size:13
Alignment explanation
Indices: 110853124--110853157 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
110853114 TAAATTATAA
*
110853124 ATTATTATTAACT
1 ATTATTATTAAAT
110853137 ATTATTATTAAAT
1 ATTATTATTAAAT
*
110853150 AATATTAT
1 ATTATTAT
110853158 ATATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:110853209 original size:17 final size:17
Alignment explanation
Indices: 110853187--110853221 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
110853177 AAATGAAGAA
*
110853187 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
110853204 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
110853221 A
1 A
110853222 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:110855554 original size:46 final size:46
Alignment explanation
Indices: 110855494--110855851 Score: 477
Period size: 46 Copynumber: 8.0 Consensus size: 46
110855484 TTTGACATGA
* * * * * *
110855494 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** *
110855540 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
110855586 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
* *
110855632 TGCCATGGTATCTTTCAACCATGGTATTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
110855678 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
110855724 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
110855770 TGCCATGGTATCTTTCAACCATGATCTT--ACA----C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
110855808 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
110855852 AGAGCACACT
Statistics
Matches: 285, Mismatches: 17, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
38 33 0.12
40 3 0.01
43 1 0.00
44 3 0.01
45 4 0.01
46 238 0.84
47 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:110855815 original size:38 final size:38
Alignment explanation
Indices: 110855764--110855839 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
110855754 ACATTTTATA
110855764 TCAGGTTGCCATGGTATCTTTCAACCATGATCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGATCTTACAC
*
110855802 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGATCTTACAC
110855840 ATTTCATATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGATCTTACAC
Found at i:110858004 original size:11 final size:11
Alignment explanation
Indices: 110857988--110858039 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
110857978 TATACTAAAT
110857988 AAATAATAATA
1 AAATAATAATA
*
110857999 AAATAAT-ATT
1 AAATAATAATA
* *
110858009 AAATATCTCATA
1 AAATA-ATAATA
*
110858021 AAATATTAATA
1 AAATAATAATA
110858032 AAATAATA
1 AAATAATA
110858040 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:110864561 original size:13 final size:13
Alignment explanation
Indices: 110864545--110864578 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
110864535 TAAATTATAA
*
110864545 ATTATTATTAACT
1 ATTATTATTAAAT
110864558 ATTATTATTAAAT
1 ATTATTATTAAAT
*
110864571 AATATTAT
1 ATTATTAT
110864579 ATATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:110864630 original size:17 final size:17
Alignment explanation
Indices: 110864608--110864642 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
110864598 AAATGAAGAA
*
110864608 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
110864625 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
110864642 A
1 A
110864643 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:110866268 original size:39 final size:39
Alignment explanation
Indices: 110866161--110866295 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
110866151 GACCTCGAGT
* * * *
110866161 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGCTAG-TC
** ** * *
110866202 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
*
110866240 CGATGAGACACTGGGTGTCAATTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAATTATTACTTCG-GCTAGTC
*
110866279 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
110866296 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
Found at i:110876093 original size:18 final size:18
Alignment explanation
Indices: 110876065--110876106 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
110876055 TGCTTAAAAA
110876065 TAATAAATTAAT-ATTATAT
1 TAAT-AATTAATAATTA-AT
110876084 TAATAATTAATAATTAAT
1 TAATAATTAATAATTAAT
110876102 TAATA
1 TAATA
110876107 TAATATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATAATTAATAATTAAT
Found at i:110876096 original size:29 final size:30
Alignment explanation
Indices: 110876063--110876130 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
110876053 ATTGCTTAAA
*
110876063 AATAATAAATTAATAT-TATATTAATAATT
1 AATAATAAATTAATATATATACTAATAATT
* *
110876092 AATAATTAATTAATATAATATACTATTAATT
1 AATAATAAATTAATAT-ATATACTAATAATT
110876123 AACTAATA
1 AA-TAATA
110876131 GTTAACTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.47
31 13 0.41
32 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (30 bp):
AATAATAAATTAATATATATACTAATAATT
Found at i:110881720 original size:23 final size:23
Alignment explanation
Indices: 110881694--110881737 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
110881684 TAAATATTAT
*
110881694 TTTATTAATATTTTACTTAGATA
1 TTTATGAATATTTTACTTAGATA
* *
110881717 TTTATGATTATTTTATTTAGA
1 TTTATGAATATTTTACTTAGA
110881738 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTATGAATATTTTACTTAGATA
Found at i:110882506 original size:12 final size:12
Alignment explanation
Indices: 110882489--110882535 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
110882479 TTTCATATGG
110882489 AAGAAACAGTGA
1 AAGAAACAGTGA
110882501 AAGAAACAGTGA
1 AAGAAACAGTGA
110882513 AAGAAACAGTGA
1 AAGAAACAGTGA
110882525 AAGAAAC-GTGA
1 AAGAAACAGTGA
110882536 TTTTATAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 4 0.11
12 31 0.89
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (12 bp):
AAGAAACAGTGA
Found at i:110885260 original size:61 final size:58
Alignment explanation
Indices: 110885187--110885304 Score: 146
Period size: 61 Copynumber: 2.0 Consensus size: 58
110885177 TATTTTATTA
* *
110885187 ATTTAATATTAAAATCAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAG
1 ATTTAATATTAAAATCAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAG
* * * **
110885248 ATTTAATCTTAAATTTAATCTAATATTTATCTTGATATGTATTATATTAATTTAATA
1 ATTTAATATTAAAATCAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
110885305 TTAAAGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 21 0.42
59 1 0.02
60 1 0.02
61 27 0.54
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (58 bp):
ATTTAATATTAAAATCAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAG
Found at i:110888478 original size:45 final size:44
Alignment explanation
Indices: 110888414--110888588 Score: 239
Period size: 45 Copynumber: 4.0 Consensus size: 44
110888404 TATCGTACAG
* *
110888414 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAACGTCGGTGAGA
1 TACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
110888459 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
110888504 TACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
110888549 TGA-TA-TCGGGCTTCGAGCCTAGCAGGCGA-AATGCTGGTGA
1 T-ACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
110888589 ATGAATTTAG
Statistics
Matches: 122, Mismatches: 6, Indels: 7
0.90 0.04 0.05
Matches are distributed among these distances:
42 10 0.08
43 14 0.11
44 12 0.10
45 85 0.70
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (44 bp):
TACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:110890820 original size:130 final size:129
Alignment explanation
Indices: 110890652--110891041 Score: 575
Period size: 130 Copynumber: 3.0 Consensus size: 129
110890642 TAATTATTCA
* * *
110890652 TTTAAAAATTCTCTAAAACGAAGGCAATACTCGATGTTTGGCAATTCAGGAATCGTGCCCTATCG
1 TTTAAAAATTCTCCAAAACAAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
*
110890717 TGCTGGGTTGCGATTTCCCGTTTGTTTAAAACAATCGAATATTCCTTTGGAATTTCACTCATGCT
66 TGCTGGGTTGCGATTT-CCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGCT
*
110890782 TTTAAAAATTCTCCAAAACAAAGGCAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTCCAAAACAAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
* *
110890847 TGCTAGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGGATTTCACTCATGCT
66 TGCTGGGTTGCGATTTC-CGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGCT
* * * **
110890912 TTAAAAAAAAACTCTCCAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCT
1 TT---TAAAAATTCTCCAAAACAAAGGCAATACTCGATGTTTGGCAATTC-GGGAATCGTGCCCT
* * * *
110890977 ATCGTGCTGGGTTACGATTT-TGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCAT
62 ATCGTGCTGGGTTGCGATTTCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCAT
110891041 G
127 G
110891042 TTCTCCAAAT
Statistics
Matches: 236, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
129 1 0.00
130 123 0.52
132 41 0.17
133 39 0.17
134 32 0.14
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (129 bp):
TTTAAAAATTCTCCAAAACAAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGCT
Found at i:110901478 original size:6 final size:6
Alignment explanation
Indices: 110901455--110901489 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
110901445 AAGAGGAGGC
* *
110901455 GGTGGA GGGGGT GGTGGA GGTGGA GGTGGA GGTGG
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGG
110901490 TGATGATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.71, T:0.17
Consensus pattern (6 bp):
GGTGGA
Found at i:110908342 original size:7 final size:7
Alignment explanation
Indices: 110908330--110908372 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
110908320 TATGTAGAGC
110908330 AAACCCT
1 AAACCCT
*
110908337 AAACCCAA
1 AAACCC-T
110908345 AAACCCT
1 AAACCCT
*
110908352 AAAACCAT
1 -AAACCCT
110908360 AAACCCT
1 AAACCCT
110908367 AAACCC
1 AAACCC
110908373 AGTCAAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 18 0.60
8 12 0.40
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (7 bp):
AAACCCT
Found at i:110908350 original size:15 final size:15
Alignment explanation
Indices: 110908330--110908373 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
110908320 TATGTAGAGC
110908330 AAACCCTAAACCCAA
1 AAACCCTAAACCCAA
* *
110908345 AAACCCTAAAACCAT
1 AAACCCTAAACCCAA
110908360 AAACCCTAAACCCA
1 AAACCCTAAACCCA
110908374 GTCAAAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.09
Consensus pattern (15 bp):
AAACCCTAAACCCAA
Found at i:110914593 original size:16 final size:17
Alignment explanation
Indices: 110914562--110914594 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
110914552 TTCATAAGTA
110914562 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
110914579 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
110914595 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:110914700 original size:19 final size:19
Alignment explanation
Indices: 110914678--110914718 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
110914668 TCCATGTACT
110914678 TATTCTTATTTCATTTATC
1 TATTCTTATTTCATTTATC
110914697 TATTCTTATTTCATTTATC
1 TATTCTTATTTCATTTATC
110914716 TAT
1 TAT
110914719 CTTCATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTCTTATTTCATTTATC
Found at i:110914959 original size:46 final size:46
Alignment explanation
Indices: 110914899--110915310 Score: 560
Period size: 46 Copynumber: 9.0 Consensus size: 46
110914889 TTTGACATGA
* * * *
110914899 TGCCATAGTGTCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
110914945 TGCCATGGTATCTTTCAACCATGGTCTTATTCACTTT-ATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* *** *
110914991 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
110915037 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
110915083 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * *
110915129 TGCTATGGTATCTTTCAACCATGATCTTACACATTTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
110915175 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
* *
110915221 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
110915267 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
110915311 AGAGCACACT
Statistics
Matches: 333, Mismatches: 29, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 330 0.99
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:110918637 original size:9 final size:9
Alignment explanation
Indices: 110918623--110918648 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
110918613 AGAGTTGGCT
110918623 TGTAAATGA
1 TGTAAATGA
110918632 TGTAAATGA
1 TGTAAATGA
110918641 TGTAAATG
1 TGTAAATG
110918649 TTGGTGTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (9 bp):
TGTAAATGA
Found at i:110920673 original size:25 final size:25
Alignment explanation
Indices: 110920643--110920693 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
110920633 AAGTCAAGGG
110920643 TTTAAAATTAAAATTATGAAAACTA
1 TTTAAAATTAAAATTATGAAAACTA
*
110920668 TTTAAAATTAAAATTATGGAAACTA
1 TTTAAAATTAAAATTATGAAAACTA
110920693 T
1 T
110920694 GGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
TTTAAAATTAAAATTATGAAAACTA
Found at i:110922267 original size:30 final size:29
Alignment explanation
Indices: 110922237--110922304 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 29
110922227 GGAATTGACA
110922237 AATTGAATTAAATTATTATATAGATCGAC
1 AATTGAATTAAATTATTATATAGATCGAC
110922266 -A---AATTAAATTATTATATAGATCGAC
1 AATTGAATTAAATTATTATATAGATCGAC
*
110922291 AATTGAATCAAATT
1 AATTGAATTAAATT
110922305 GAAGATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 24 0.71
26 1 0.03
28 1 0.03
29 8 0.24
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (29 bp):
AATTGAATTAAATTATTATATAGATCGAC
Found at i:110922270 original size:25 final size:25
Alignment explanation
Indices: 110922242--110922292 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
110922232 TGACAAATTG
110922242 AATTAAATTATTATATAGATCGACA
1 AATTAAATTATTATATAGATCGACA
110922267 AATTAAATTATTATATAGATCGACA
1 AATTAAATTATTATATAGATCGACA
110922292 A
1 A
110922293 TTGAATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (25 bp):
AATTAAATTATTATATAGATCGACA
Found at i:110928199 original size:78 final size:78
Alignment explanation
Indices: 110928066--110928217 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
110928056 GAGTCACATC
** *
110928066 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCAAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
110928131 AATGAATCATATA
66 AATGAATCATATA
**
110928144 TCATGTAACTGTAGCAAATCAGGATTACCTTTTCAGGTCAAATCCTATCTGCCTTAAGTTACCAT
1 TCATGTAACTGTAGCAAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
110928209 AGTGAATCA
66 AATGAATCA
110928218 GGAATAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCAAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:110928230 original size:40 final size:39
Alignment explanation
Indices: 110928182--110928312 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 39
110928172 CTTTTCAGGT
110928182 CAAATCCTATCTGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCT-CCTTAAGTTACCATAGTGAATCAGGAA
* *
110928222 TAAATCCTAT-TCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCTC-C-TTAAGTTACCATAGTGAATCAGGAA
* * *
110928262 CAAATCCTATC-CACTTTGAGGTATCATAGTGAATCAGGAA
1 CAAATCCTATCTC-C-TTAAGTTACCATAGTGAATCAGGAA
*
110928302 CGAATCCTATC
1 CAAATCCTATC
110928313 CACTTTATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 77 0.96
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (39 bp):
CAAATCCTATCTCCTTAAGTTACCATAGTGAATCAGGAA
Found at i:110928313 original size:40 final size:40
Alignment explanation
Indices: 110928203--110928319 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
110928193 TGCCTTAAGT
* * *
110928203 TACCATAGTGAATCAGGAATAAATCCTATTCACTTTAAAT
1 TACCATAGTGAATCAGGAACAAATCCTATCCACTTTAAAG
* *
110928243 TACCATAGTGAATCAGGAACAAATCCTATCCACTTTGAGG
1 TACCATAGTGAATCAGGAACAAATCCTATCCACTTTAAAG
* *
110928283 TATCATAGTGAATCAGGAACGAATCCTATCCACTTTA
1 TACCATAGTGAATCAGGAACAAATCCTATCCACTTTA
110928320 TATTCTCGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (40 bp):
TACCATAGTGAATCAGGAACAAATCCTATCCACTTTAAAG
Found at i:110929981 original size:8 final size:8
Alignment explanation
Indices: 110929968--110929992 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
110929958 ATATATATTA
110929968 AATAAAAT
1 AATAAAAT
110929976 AATAAAAT
1 AATAAAAT
110929984 AATAAAAT
1 AATAAAAT
110929992 A
1 A
110929993 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:110934533 original size:149 final size:149
Alignment explanation
Indices: 110934258--110934561 Score: 482
Period size: 149 Copynumber: 2.0 Consensus size: 149
110934248 TAGTCCTTTT
* *
110934258 TTCATCGTTCTTAGAGATATTTATAGGTGAGGGTCCTGTGTAAGATGGTGTTAATGTGTTAGACT
1 TTCATCGTTCTTAGAGATATTTATAGGTGAGGGTCCTATGTAAGATGGTGTTAACGTGTTAGACT
* * *
110934323 TGCCATTTAATCATCATTAAAGAACATGTGGGAAGGGGTGTTTTCTATTGGACGAGAATGTCACA
66 TGACATTTAATCATCATTAAAGAACATGTAGGAAGGGGTGTTTTCTATTAGACGAGAATGTCACA
* *
110934388 GATGGGATAGATCCTGTCA
131 GACGGGATAAATCCTGTCA
* * *
110934407 TTCATCGTTCTTGGAGATATTTATAGGTGATGGTCCTATGTAAGATGGTGTTAACGTGTTAGGCT
1 TTCATCGTTCTTAGAGATATTTATAGGTGAGGGTCCTATGTAAGATGGTGTTAACGTGTTAGACT
* * *
110934472 TGACATTTAATCATCATTACAGAACATGTAGGAGGGGGTGTTTTCTATTAGACGAGGATGTCACA
66 TGACATTTAATCATCATTAAAGAACATGTAGGAAGGGGTGTTTTCTATTAGACGAGAATGTCACA
*
110934537 GACGGGATAAATCTTGTCA
131 GACGGGATAAATCCTGTCA
110934556 TTCATC
1 TTCATC
110934562 TTGACTTGAT
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
149 141 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (149 bp):
TTCATCGTTCTTAGAGATATTTATAGGTGAGGGTCCTATGTAAGATGGTGTTAACGTGTTAGACT
TGACATTTAATCATCATTAAAGAACATGTAGGAAGGGGTGTTTTCTATTAGACGAGAATGTCACA
GACGGGATAAATCCTGTCA
Found at i:110935597 original size:19 final size:19
Alignment explanation
Indices: 110935558--110935612 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
110935548 ATATTAAAAA
*
110935558 TATTAAAATTGATATAAACT
1 TATTAAAATT-ATAAAAACT
110935578 TATTAAAATTATAAAAACT
1 TATTAAAATTATAAAAACT
*
110935597 T-GTAAATATTATAAAA
1 TATTAAA-ATTATAAAA
110935613 TATAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 4 0.12
19 18 0.56
20 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TATTAAAATTATAAAAACT
Found at i:110935630 original size:28 final size:29
Alignment explanation
Indices: 110935599--110935665 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
110935589 TAAAAACTTG
*
110935599 TAAATATTATAAAATATAATAAA-TATAA
1 TAAATATAATAAAATATAATAAATTATAA
* *
110935627 TAAATATAATAAATTCTAATAAATTATAA
1 TAAATATAATAAAATATAATAAATTATAA
110935656 -AAAT-TAATAA
1 TAAATATAATAA
110935666 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.17
28 24 0.69
29 5 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (29 bp):
TAAATATAATAAAATATAATAAATTATAA
Found at i:110935665 original size:10 final size:9
Alignment explanation
Indices: 110935497--110935661 Score: 73
Period size: 9 Copynumber: 18.4 Consensus size: 9
110935487 CCATGAAGAT
110935497 ATTA-AAAA
1 ATTATAAAA
*
110935505 ATTAGAAAA
1 ATTATAAAA
110935514 ATTATAAAAA
1 ATTAT-AAAA
**
110935524 AAGATATAAA
1 ATTATA-AAA
110935534 A--ATAAAA
1 ATTATAAAA
*
110935541 A-TAT-TAA
1 ATTATAAAA
110935548 A-TATTAAAA
1 ATTA-TAAAA
*
110935557 A-TATTAAA
1 ATTATAAAA
110935565 ATTGATATAAA
1 ATT-ATA-AAA
* *
110935576 CTTATTAAA
1 ATTATAAAA
110935585 ATTATAAAA
1 ATTATAAAA
* *
110935594 ACTTGTAAAT
1 A-TTATAAAA
110935604 ATTAT-AAA
1 ATTATAAAA
110935612 A-TATAATAA
1 ATTATAA-AA
110935621 A-TATAATAA
1 ATTATAA-AA
110935630 A-TATAATAA
1 ATTATAA-AA
*
110935639 ATTCTAATAA
1 ATTATAA-AA
110935649 ATTATAAAA
1 ATTATAAAA
110935658 ATTA
1 ATTA
110935662 ATAATTTTTT
Statistics
Matches: 127, Mismatches: 17, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
7 12 0.09
8 19 0.15
9 56 0.44
10 35 0.28
11 5 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:110935755 original size:23 final size:24
Alignment explanation
Indices: 110935715--110935770 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
110935705 ATTCTTAAAA
*
110935715 ATAATAAAAAGTTGTAAAAAAATAT
1 ATAA-AAAAAGTTATAAAAAAATAT
*
110935740 ATAAAAAAAG-TATAAAGAAATAT
1 ATAAAAAAAGTTATAAAAAAATAT
110935763 -TAAAAAAA
1 ATAAAAAAA
110935771 TTAAAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 8 0.28
23 11 0.38
24 6 0.21
25 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (24 bp):
ATAAAAAAAGTTATAAAAAAATAT
Found at i:110935771 original size:11 final size:11
Alignment explanation
Indices: 110935729--110935771 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
110935719 TAAAAAGTTG
110935729 TAAAAAAATAT
1 TAAAAAAATAT
110935740 ATAAAAAAAGTA-
1 -TAAAAAAA-TAT
*
110935752 TAAAGAAATAT
1 TAAAAAAATAT
110935763 TAAAAAAAT
1 TAAAAAAAT
110935772 TAAAATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 8 0.30
13 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (11 bp):
TAAAAAAATAT
Found at i:110936310 original size:21 final size:20
Alignment explanation
Indices: 110936276--110936322 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
110936266 AATTTATATG
*
110936276 ATTTTATTAGAATTTT-AAT
1 ATTTTATTAAAATTTTAAAT
110936295 ATGTTTATATAAAATTTTAAAT
1 AT-TTTAT-TAAAATTTTAAAT
110936317 ATTTTA
1 ATTTTA
110936323 AATTTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 12 0.50
22 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTTATTAAAATTTTAAAT
Found at i:110941689 original size:20 final size:19
Alignment explanation
Indices: 110941643--110941689 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
110941633 GTAATTCATG
110941643 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
110941662 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
110941683 TTTAATT
1 TTTAATT
110941690 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:110943155 original size:2 final size:2
Alignment explanation
Indices: 110943148--110943177 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
110943138 ATTGAAAGGG
*
110943148 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110943178 GTATTAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:110955117 original size:10 final size:10
Alignment explanation
Indices: 110955075--110955236 Score: 76
Period size: 10 Copynumber: 16.7 Consensus size: 10
110955065 TAAAAATAAT
**
110955075 TAAAAAATCC
1 TAAAAAATTA
110955085 TAAAAAA-TA
1 TAAAAAATTA
110955094 TTAAAAAA--A
1 -TAAAAAATTA
*
110955103 GAAAAAATTA
1 TAAAAAATTA
110955113 TAAAAAATTA
1 TAAAAAATTA
110955123 T--AAAATTAA
1 TAAAAAATT-A
110955132 TAAAACATATT-
1 TAAAA-A-ATTA
*
110955143 TAAAATATTA
1 TAAAAAATTA
**
110955153 TAAAAACGTA
1 TAAAAAATTA
* *
110955163 T--TAAATTC
1 TAAAAAATTA
*
110955171 TATAGAAATTA
1 TA-AAAAATTA
110955182 T-AAAAATTA
1 TAAAAAATTA
*
110955191 TAAAAAAGTA
1 TAAAAAATTA
*
110955201 T-TAAAATTAA
1 TAAAAAATT-A
* *
110955211 TATAAACTTA
1 TAAAAAATTA
110955221 T-AAAAATTA
1 TAAAAAATTA
110955230 TAAAAAA
1 TAAAAAA
110955237 AATTCATAAA
Statistics
Matches: 115, Mismatches: 21, Indels: 32
0.68 0.12 0.19
Matches are distributed among these distances:
8 16 0.14
9 26 0.23
10 50 0.43
11 19 0.17
12 1 0.01
13 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:110955126 original size:28 final size:27
Alignment explanation
Indices: 110955076--110955158 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 27
110955066 AAAAATAATT
*
110955076 AAAAAATCCTAAAAAA-TATTAAAAAAAG
1 AAAAAAT-TTAAAAAATTA-TAAAAAAAG
* *
110955104 AAAAAATTATAAAAAATTATAAAATTAAT
1 AAAAAATT-TAAAAAATTATAAAA-AAAG
*
110955133 AAAACATATTTAAAATATTATAAAAA
1 AAAA-A-ATTTAAAAAATTATAAAAA
110955159 CGTATTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
28 19 0.42
29 8 0.18
30 15 0.33
31 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.27
Consensus pattern (27 bp):
AAAAAATTTAAAAAATTATAAAAAAAG
Found at i:110955186 original size:39 final size:39
Alignment explanation
Indices: 110955105--110955236 Score: 155
Period size: 39 Copynumber: 3.4 Consensus size: 39
110955095 TAAAAAAAGA
* *
110955105 AAAAATTATAAAAAATTA-TAAAATTAATA-AAACATATTT
1 AAAAATTATAAAAAAGTATTAAAATTAATATAAA-AT-TAT
* *
110955144 AAAATATTATAAAAACGTATT-AAATT-CTATAGAAATTAT
1 AAAA-ATTATAAAAAAGTATTAAAATTAATATA-AAATTAT
*
110955183 AAAAATTATAAAAAAGTATTAAAATTAATATAAACTTAT
1 AAAAATTATAAAAAAGTATTAAAATTAATATAAAATTAT
110955222 AAAAATTATAAAAAA
1 AAAAATTATAAAAAA
110955237 AATTCATAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
38 15 0.19
39 38 0.47
40 24 0.30
41 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (39 bp):
AAAAATTATAAAAAAGTATTAAAATTAATATAAAATTAT
Found at i:110955188 original size:9 final size:9
Alignment explanation
Indices: 110955105--110955235 Score: 93
Period size: 10 Copynumber: 13.6 Consensus size: 9
110955095 TAAAAAAAGA
110955105 AAAAATTAT
1 AAAAATTAT
110955114 AAAAAATTAT
1 -AAAAATTAT
110955124 -AAAATTAAT
1 AAAAATT-AT
*
110955133 AAAACATATTT
1 AAAA-AT-TAT
110955144 AAAATATTAT
1 AAAA-ATTAT
*
110955154 AAAAACGTAT
1 AAAAA-TTAT
* *
110955164 TAAATTCTAT
1 AAAAAT-TAT
*
110955174 AGAAATTAT
1 AAAAATTAT
110955183 AAAAATTAT
1 AAAAATTAT
*
110955192 AAAAAAGTAT
1 -AAAAATTAT
*
110955202 TAAAATTAAT
1 AAAAATT-AT
*
110955212 ATAAACTTAT
1 A-AAAATTAT
110955222 AAAAATTAT
1 AAAAATTAT
110955231 AAAAA
1 AAAAA
110955236 AAATTCATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 19
0.73 0.13 0.15
Matches are distributed among these distances:
8 6 0.06
9 31 0.33
10 43 0.45
11 14 0.15
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:110955784 original size:7 final size:7
Alignment explanation
Indices: 110955772--110955799 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
110955762 TTTATATCAA
110955772 TTTTAAT
1 TTTTAAT
110955779 TTTTAAT
1 TTTTAAT
110955786 TTTTAAT
1 TTTTAAT
110955793 TTTTAAT
1 TTTTAAT
110955800 ATTCAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:110970003 original size:7 final size:7
Alignment explanation
Indices: 110969991--110970022 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
110969981 GCTCTCCTTA
110969991 ACTCAGT
1 ACTCAGT
110969998 ACTCAGT
1 ACTCAGT
110970005 ACTCAGT
1 ACTCAGT
110970012 ACTCAGT
1 ACTCAGT
110970019 ACTC
1 ACTC
110970023 CGACTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (7 bp):
ACTCAGT
Found at i:110988664 original size:39 final size:38
Alignment explanation
Indices: 110988610--110988686 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 38
110988600 GGAGATAAGA
110988610 TAACCGAAATGACCACTAAATAAGATTTGATTGATTGCT
1 TAACCGAAATGACCACTAAATAAGA-TTGATTGATTGCT
110988649 TAACCGAAATGACCACTAAATAAGATTGATTGATTGCT
1 TAACCGAAATGACCACTAAATAAGATTGATTGATTGCT
110988687 CTTTCTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 13 0.34
39 25 0.66
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (38 bp):
TAACCGAAATGACCACTAAATAAGATTGATTGATTGCT
Found at i:110990786 original size:68 final size:68
Alignment explanation
Indices: 110990677--110990811 Score: 270
Period size: 68 Copynumber: 2.0 Consensus size: 68
110990667 TCGGGTTGAG
110990677 CTTCTAGGTTGGCGACAGAATTGGCAGGTGTACTTATAGCAAACCCCAATAACATTGACAGGTTT
1 CTTCTAGGTTGGCGACAGAATTGGCAGGTGTACTTATAGCAAACCCCAATAACATTGACAGGTTT
110990742 ATA
66 ATA
110990745 CTTCTAGGTTGGCGACAGAATTGGCAGGTGTACTTATAGCAAACCCCAATAACATTGACAGGTTT
1 CTTCTAGGTTGGCGACAGAATTGGCAGGTGTACTTATAGCAAACCCCAATAACATTGACAGGTTT
110990810 AT
66 AT
110990812 CTGGGTCCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (68 bp):
CTTCTAGGTTGGCGACAGAATTGGCAGGTGTACTTATAGCAAACCCCAATAACATTGACAGGTTT
ATA
Found at i:110994760 original size:35 final size:35
Alignment explanation
Indices: 110994714--110994784 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
110994704 ATCTTTAGTG
* *
110994714 AAGTTTGTTTTAGCCATAGTGTTATTGGAGATATA
1 AAGTTTATTTTAGCCATAGTGTTATTAGAGATATA
110994749 AAGTTTATTTTAGCCATAGTGTTATTAGAGATATA
1 AAGTTTATTTTAGCCATAGTGTTATTAGAGATATA
110994784 A
1 A
110994785 CCCAGTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (35 bp):
AAGTTTATTTTAGCCATAGTGTTATTAGAGATATA
Found at i:110995507 original size:26 final size:29
Alignment explanation
Indices: 110995462--110995517 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
110995452 TTCGACTAAC
110995462 AACATTAACAGGAAAGAACA-AAAAGGAA
1 AACATTAACAGGAAAGAACAGAAAAGGAA
*
110995490 AACA-TAACA-GAAATAACAGAAAAGGAA
1 AACATTAACAGGAAAGAACAGAAAAGGAA
110995517 A
1 A
110995518 TCCAAATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.31
27 14 0.54
28 4 0.15
ACGTcount: A:0.66, C:0.11, G:0.16, T:0.07
Consensus pattern (29 bp):
AACATTAACAGGAAAGAACAGAAAAGGAA
Found at i:111004312 original size:45 final size:45
Alignment explanation
Indices: 111004261--111004351 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
111004251 ATATATAAGA
*
111004261 AAGGTTTTTATTACTTTTTTAATAGCTAATAATTCTTTTTCATAT
1 AAGGTTTTTATTACTTTTTTAATAGCAAATAATTCTTTTTCATAT
*
111004306 AAGGTTTTTATTGCTTTTTTAATAGCAAATAATTCTTTTTCATAT
1 AAGGTTTTTATTACTTTTTTAATAGCAAATAATTCTTTTTCATAT
111004351 A
1 A
111004352 TAGCATAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.54
Consensus pattern (45 bp):
AAGGTTTTTATTACTTTTTTAATAGCAAATAATTCTTTTTCATAT
Found at i:111009650 original size:7 final size:7
Alignment explanation
Indices: 111009638--111009662 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
111009628 AATGAGGTAA
111009638 AAAATTT
1 AAAATTT
111009645 AAAATTT
1 AAAATTT
111009652 AAAATTT
1 AAAATTT
111009659 AAAA
1 AAAA
111009663 CTTGTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:111011578 original size:29 final size:29
Alignment explanation
Indices: 111011510--111011578 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
111011500 CCAAATTAAA
111011510 CACCCCACTAAACCGACCACTACCTCCAT
1 CACCCCACTAAACCGACCACTACCTCCAT
**
111011539 CACCTTACTAAACC-ATCCACTACCTCCAT
1 CACCCCACTAAACCGA-CCACTACCTCCAT
* *
111011568 TACCCCCCTAA
1 CACCCCACTAA
111011579 CTCCATCGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.30, C:0.49, G:0.01, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCGACCACTACCTCCAT
Found at i:111012004 original size:19 final size:18
Alignment explanation
Indices: 111011980--111012016 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
111011970 TTATGTTTCA
111011980 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
111011999 TATTATTATATATTTATT
1 TATTATTATATATTTATT
111012017 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:111012015 original size:11 final size:12
Alignment explanation
Indices: 111011980--111012035 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 12
111011970 TTATGTTTCA
111011980 TATTAT-TATAT
1 TATTATATATAT
*
111011991 TATT-TATTTAT
1 TATTATATATAT
111012002 TATTATATAT-T
1 TATTATATATAT
* *
111012013 TATTATGTA-AA
1 TATTATATATAT
111012024 TA-TATATATAT
1 TATTATATATAT
111012035 T
1 T
111012036 TTTAAGCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
10 6 0.17
11 25 0.71
12 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
TATTATATATAT
Found at i:111012028 original size:17 final size:14
Alignment explanation
Indices: 111011988--111012018 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
111011978 CATATTATTA
*
111011988 TATTATTTATTTAT
1 TATTATATATTTAT
111012002 TATTATATATTTAT
1 TATTATATATTTAT
111012016 TAT
1 TAT
111012019 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:111012144 original size:19 final size:20
Alignment explanation
Indices: 111012104--111012140 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
111012094 TATTTTTTTA
111012104 TACCATTGTTTATTATCAAT
1 TACCATTGTTTATTATCAAT
111012124 TACCATT-TTTA-TATCAA
1 TACCATTGTTTATTATCAA
111012141 ATTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (20 bp):
TACCATTGTTTATTATCAAT
Found at i:111012714 original size:126 final size:125
Alignment explanation
Indices: 111012489--111012722 Score: 414
Period size: 126 Copynumber: 1.9 Consensus size: 125
111012479 ATCTTCTCTC
* * *
111012489 AAAATTTTTTAAAATAAAGGTAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCTAACGTAC
1 AAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCTAACGTAC
111012554 TGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTTTA
66 TGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTTTA
*
111012614 AAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTA
1 AAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATG-CCTAACGTA
*
111012679 CTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCT
65 CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCT
111012723 TTTAAGGCTA
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 51 0.50
126 52 0.50
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (125 bp):
AAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCTAACGTAC
TGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTTTA
Found at i:111013714 original size:15 final size:16
Alignment explanation
Indices: 111013696--111013728 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
111013686 AATATATTTT
111013696 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
111013711 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
111013728 T
1 T
111013729 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:111013832 original size:20 final size:22
Alignment explanation
Indices: 111013778--111013833 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
111013768 TTAAGAATTA
* *
111013778 TTTTAGTAT-TATTTTTATTTG
1 TTTTAATATATATTTTTATGTG
*
111013799 TTTTAATATTTATTTTTATGT-
1 TTTTAATATATATTTTTATGTG
111013820 TTTTAA-ATATATTT
1 TTTTAATATATATTT
111013834 GATTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 10 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATATATATTTTTATGTG
Found at i:111013848 original size:25 final size:24
Alignment explanation
Indices: 111013804--111013862 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
111013794 ATTTGTTTTA
*
111013804 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATGATTTTAAAT
111013828 ATATTTGATTTATTAT-ATTTTAAAT
1 ATATTT-ATTT-TTATGATTTTAAAT
* *
111013853 TTTTTTATTT
1 ATATTTATTT
111013863 AATGAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 16 0.53
26 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATGATTTTAAAT
Found at i:111015444 original size:15 final size:15
Alignment explanation
Indices: 111015424--111015457 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
111015414 TGTATTGAGG
111015424 CAATATAGATCGAGA
1 CAATATAGATCGAGA
111015439 CAATATAGATCGAGA
1 CAATATAGATCGAGA
111015454 CAAT
1 CAAT
111015458 TTATACCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (15 bp):
CAATATAGATCGAGA
Found at i:111016821 original size:21 final size:21
Alignment explanation
Indices: 111016795--111016839 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
111016785 GAGGGATCAA
*
111016795 ATGCTGGAGTCCCAGAAA-AAC
1 ATGCTGGAGTCACA-AAACAAC
111016816 ATGCTGGAGTCACAAAACAAC
1 ATGCTGGAGTCACAAAACAAC
111016837 ATG
1 ATG
111016840 ATAAGCCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAAAACAAC
Found at i:111019004 original size:46 final size:46
Alignment explanation
Indices: 111018952--111019127 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
111018942 TGGTTGAGCA
*
111018952 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
111018998 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
111019045 TCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
111019091 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111019128 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.59
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:111019108 original size:93 final size:93
Alignment explanation
Indices: 111018949--111019119 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
111018939 GGATGGTTGA
* * **
111018949 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
111019014 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
111019042 GCATCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
111019107 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
111019120 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:111021929 original size:19 final size:17
Alignment explanation
Indices: 111021892--111021934 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
111021882 GTGGTATTAT
* *
111021892 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
111021909 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
111021928 CATAAAT
1 CATAAAT
111021935 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:111024649 original size:47 final size:45
Alignment explanation
Indices: 111024580--111024708 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 45
111024570 AGATTTGTGT
111024580 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGA-GACGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATATGATGA-GA
* * *
111024626 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCATATGATGAGA
111024674 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA
111024709 CGGTTACATG
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
45 3 0.04
46 35 0.48
47 18 0.25
48 15 0.21
49 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATATGATGAGA
Found at i:111024726 original size:46 final size:46
Alignment explanation
Indices: 111024578--111024744 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
111024568 TGAGATTTGT
* **
111024578 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACTGTTAC-A
* * * * *
111024626 GGGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGC-CATATTATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAC-TGTTA-CA
* *
111024672 GAGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCACGGTTACA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCACTGTTACA
* *
111024717 TGTGTCAGTGTAAGATC-TGTCTGGGACA
1 -GTGCCAGTGTAAGACCATGTCTGGGACA
111024745 CGGCATCGAC
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 69 0.70
47 16 0.16
48 12 0.12
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCACTGTTACA
Found at i:111028177 original size:46 final size:46
Alignment explanation
Indices: 111028125--111028300 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
111028115 TGGTTGAGCA
*
111028125 TCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
111028171 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
111028216 CATCCGAGCTCGTTGAGTTAAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
111028264 CCCGAGCTTGTTGAGTTGAGTCCGAGTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111028301 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.57
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:111028281 original size:93 final size:93
Alignment explanation
Indices: 111028122--111028291 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
111028112 GGATGGTTGA
* * **
111028122 GCATCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
111028187 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
111028215 GCATCCGAGCTCGTTGAGTTAAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
111028280 TGAGTCCGAGTT
66 TGAGTCCGAGTT
111028292 TACTTATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:111031997 original size:13 final size:13
Alignment explanation
Indices: 111031981--111032054 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
111031971 TTCAAAAACA
111031981 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
**
111031994 AAAAAGGAAAGAG
1 AAAAAAAAAAGAG
*
111032007 AAAAAAGGAAA-A-
1 AAAAAA-AAAAGAG
* *
111032019 ACAAAAAGAAGAG
1 AAAAAAAAAAGAG
111032032 AAAAACAAAAAAGAG
1 -AAAA-AAAAAAGAG
111032047 AAAGAAAA
1 AAA-AAAA
111032055 GAAAAGCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
11 2 0.04
12 6 0.13
13 17 0.36
14 13 0.28
15 9 0.19
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:111032011 original size:14 final size:14
Alignment explanation
Indices: 111031988--111032036 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 14
111031978 ACAAAAAAAA
111031988 AAAGAG-AAAAAGG
1 AAAGAGAAAAAAGG
111032001 AAAGAGAAAAAAGG
1 AAAGAGAAAAAAGG
111032015 AAA-A-ACAAAAA-G
1 AAAGAGA-AAAAAGG
111032027 -AAGAGAAAAA
1 AAAGAGAAAAA
111032037 CAAAAAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 2 0.06
12 7 0.22
13 13 0.41
14 10 0.31
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAGAGAAAAAAGG
Found at i:111032035 original size:24 final size:24
Alignment explanation
Indices: 111032002--111032064 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
111031992 AGAAAAAGGA
111032002 AAGAGAAAAA-AGGAAAAACAAAAAG
1 AAGAGAAAAACA--AAAAACAAAAAG
* *
111032027 AAGAGAAAAACAAAAAAGAGAAAG
1 AAGAGAAAAACAAAAAACAAAAAG
* *
111032051 AAAAGAAAAGCAAA
1 AAGAGAAAAACAAA
111032065 TGAGAGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 22 0.67
25 10 0.30
26 1 0.03
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (24 bp):
AAGAGAAAAACAAAAAACAAAAAG
Found at i:111032054 original size:18 final size:18
Alignment explanation
Indices: 111032009--111032054 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
111031999 GGAAAGAGAA
111032009 AAAAGGAAAAAC-AAAAAG
1 AAAA-GAAAAACAAAAAAG
*
111032027 AAGAGAAAAACAAAAAAG
1 AAAAGAAAAACAAAAAAG
111032045 AGAAAGAAAA
1 A-AAAGAAAA
111032055 GAAAAGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.29
18 10 0.42
19 7 0.29
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAACAAAAAAG
Found at i:111033631 original size:176 final size:177
Alignment explanation
Indices: 111033317--111033756 Score: 706
Period size: 176 Copynumber: 2.5 Consensus size: 177
111033307 CAGATTTCAG
* *
111033317 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCTACTGGAAG
1 CAAGCCTTATCCCACT-AGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* * **
111033382 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGATTAGGAGCGGAGCAGATCAAATT
65 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATT
111033447 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
130 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * * *
111033495 CCAGCCTTATCTTCACT-G-AGGAGT-GAAGCAGGCTAAATAGAGCAGATCTCATCCCACTGGCT
1 CAAGCCTTATC-CCACTAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGCA
*
111033557 GGAGTGGAACAGATCAAATTTTGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAAT
64 GGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAAT
* *
111033622 TTTGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTCAGCCA
129 TTTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
111033671 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
1 CAAGCCTTATCCCACT-AGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
111033736 GAGTGGAACAGATCAAATTTC
65 GAGTGGAACAGATCAAATTTC
111033757 AGCGAATCTT
Statistics
Matches: 238, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
175 7 0.03
176 153 0.64
177 2 0.01
178 69 0.29
179 7 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (177 bp):
CAAGCCTTATCCCACTAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGG
AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATTT
TGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
Found at i:111033748 original size:132 final size:132
Alignment explanation
Indices: 111033600--111034106 Score: 650
Period size: 132 Copynumber: 3.8 Consensus size: 132
111033590 TCTTCGCTAA
* * * * *
111033600 GCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTT
*
111033665 CAGCCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
66 CAGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
111033730 TG
131 TG
* *
111033732 GCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTGTCTCCATGTATCGGCAATAGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTT
* * * * *
111033797 CAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-CT--CTAGATCTTATCTT
66 CAGCCACCAGCCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAATATAGC-AGATCTCATC-C
*
111033859 CGCTG
128 CACTG
* *
111033864 AGCAGGAGTGGAGCAGATCAAATTTT-GACGAATCTTATCTCCATGTATCGGCAATGGAGCAGA-
1 -GCAGGAGTGGAACAGATCAAATTTTAG-CGAATCTTATCTCCATGTATCGGCAATAGAGCAGAT
* *
111033927 TTCAAACCACCAGCGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
64 TTC-AGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
111033992 CACTG
128 CACTG
* * *
111033997 GCAGGAGTGGAACATATCAAATTTTAGCGGATCTTATCTCAATGTATCGGCAATAGAGCAGA-TT
1 GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTT
* * * * * *
111034061 CAAACCACCAGTCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTAAA
66 C-AGCCACCAGCCTTATCCCACTGAGCAGGAGTGG-AACAGGCTAAA
111034107 GTTTACAAAC
Statistics
Matches: 327, Mismatches: 37, Indels: 22
0.85 0.10 0.06
Matches are distributed among these distances:
130 1 0.00
131 11 0.03
132 203 0.62
133 102 0.31
134 9 0.03
135 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (132 bp):
GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTT
CAGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCAC
TG
Found at i:111034055 original size:265 final size:265
Alignment explanation
Indices: 111033582--111034060 Score: 834
Period size: 265 Copynumber: 1.8 Consensus size: 265
111033572 AAATTTTGAC
*
111033582 AGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTAT
* *
111033647 CGGTAATGGAGCAGATTTCAGCCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
66 CGGCAATGGAGCAGATTTCAACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
* *
111033712 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTGTCTCCATGT
131 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCAATGT
111033777 ATCGGCAATAGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
196 ATCGGCAATAGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
111033842 ACTCT
261 ACTCT
* *
111033847 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTAT
* *
111033912 CGGCAATGGAGCAGA-TTCAAACCACCAGCGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAAT
66 CGGCAATGGAGCAGATTTC-AACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAAT
* * *
111033976 ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACATATCAAATTTTAGCGGATCTTATCTCAATG
130 ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCAATG
111034041 TATCGGCAATAGAGCAGATT
195 TATCGGCAATAGAGCAGATT
111034061 CAAACCACCA
Statistics
Matches: 201, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
264 3 0.01
265 198 0.99
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTTCAACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCAATGT
ATCGGCAATAGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
ACTCT
Found at i:111034145 original size:265 final size:265
Alignment explanation
Indices: 111033599--111034150 Score: 747
Period size: 265 Copynumber: 2.1 Consensus size: 265
111033589 ATCTTCGCTA
* * *
111033599 AGCAGGAGCGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATT
1 AGCAGGAGCAGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
*
111033664 TCAGCCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCA
66 TCAACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCA
* *
111033729 CTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTGTCTCCATGTATCGGCAATAGAGCAGA
131 CTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCAATGTATCGGCAATAGAGCAGA
* * * * * * * *
111033794 TTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACTCTAGATCTTATCTT
196 TTTCAACCACCAGCCTTAACTCCACTAAGCAGGAGTGGAACAGGCTAAACTCTAAAACTTAGCTT
*
111033859 CGCTG
261 CGCCG
**
111033864 AGCAGGAGTGGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGA-T
1 AGCAGGAGCAGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* *
111033928 TCAAACCACCAGCGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCC
66 TC-AACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCC
* * *
111033993 ACTGGCAGGAGTGGAACATATCAAATTTTAGCGGATCTTATCTCAATGTATCGGCAATAGAGCAG
130 ACTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCAATGTATCGGCAATAGAGCAG
* * * * *
111034058 A-TTCAAACCACCAGTCTTAAC-CCCCTAAGCAGTAG-GGTAACAGGCTAAAGTTTACAAACTTG
195 ATTTC-AACCACCAGCCTTAACTCCACTAAGCAGGAGTGG-AACAGGCTAAACTCTA-AAACTT-
*
111034120 GGC-TCGCCG
256 AGCTTCGCCG
*
111034129 AGTAGTG-GCAGAGCAGATCAAA
1 AGCAG-GAGCAGAGCAGATCAAA
111034151 GATACACGCC
Statistics
Matches: 252, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
263 2 0.01
264 29 0.12
265 219 0.87
266 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (265 bp):
AGCAGGAGCAGAGCAGATCAAATTTTGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
TCAACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCA
CTGGCAGGAGTGGAACAGATCAAATTTCAGCGAATCTTATCTCAATGTATCGGCAATAGAGCAGA
TTTCAACCACCAGCCTTAACTCCACTAAGCAGGAGTGGAACAGGCTAAACTCTAAAACTTAGCTT
CGCCG
Found at i:111034284 original size:85 final size:85
Alignment explanation
Indices: 111034073--111034459 Score: 548
Period size: 85 Copynumber: 4.5 Consensus size: 85
111034063 AACCACCAGT
* * * *
111034073 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACA-AACTTGGGCTCGCCGAGTAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC-TAGGCTCGCCGAGCAGTGG
* * *
111034137 CAGAGCAGATCAAAGATACACGC
65 CGGAGCAGGTCAAAG--ACTCGC
111034160 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTAGGCTCGCCGAGCAGTGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTAGGCTCGCCGAGCAGTGGC
*
111034225 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCAAAGACTCGC
*
111034245 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTCAGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT-AGGCTCGCCGAGCAGTGG
* *
111034309 TGGAGCAGGTCAAAGACTCAC
65 CGGAGCAGGTCAAAGACTCGC
* * * *
111034330 TTTAGCCCCCTAAGCAATAGGGTAACAGGCTAAAATTTACAGATCCTA-GCTCTCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-CTAGGCTCGCCGAGCAGTGG
* *
111034394 TGGAGCAGGTCGAAGACTCGC
65 CGGAGCAGGTCAAAGACTCGC
111034415 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
111034460 TATTTTCGTT
Statistics
Matches: 274, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
83 2 0.01
84 10 0.04
85 188 0.69
86 1 0.00
87 71 0.26
88 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (85 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTAGGCTCGCCGAGCAGTGGC
GGAGCAGGTCAAAGACTCGC
Found at i:111034730 original size:29 final size:29
Alignment explanation
Indices: 111034697--111034802 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 29
111034687 CCAAATTAAA
111034697 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
111034726 CACCCTACTAAACCATCCACTATCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
*
111034755 CACCCCCATACCTTACTAAACCATCCACTACCTCCAT
1 CA---CC---CC--ACTAAACCATCCACTAACTCCAT
111034792 CACCCCACTAA
1 CACCCCACTAA
111034803 CTCCATCACC
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
28 1 0.02
29 32 0.50
31 2 0.03
32 2 0.03
34 2 0.03
35 1 0.02
37 24 0.38
ACGTcount: A:0.32, C:0.48, G:0.01, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:111034778 original size:37 final size:38
Alignment explanation
Indices: 111034722--111034797 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
111034712 ACCACTAACT
*
111034722 CCATCACCCTACTAAACCATCCACTATCTCCATCACCC
1 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
*
111034760 CCAT-ACCTTACTAAACCATCCACTACCTCCATCACCC
1 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
111034797 C
1 C
111034798 ACTAACTCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (38 bp):
CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
Found at i:111034801 original size:17 final size:17
Alignment explanation
Indices: 111034779--111034813 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
111034769 ACTAAACCAT
*
111034779 CCACTACCTCCATCACC
1 CCACTAACTCCATCACC
111034796 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
111034813 C
1 C
111034814 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.57, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:111035221 original size:10 final size:11
Alignment explanation
Indices: 111035203--111035242 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
111035193 TTATGTTTCA
111035203 TATTATTATAT
1 TATTATTATAT
111035214 TA-TATTAT-T
1 TATTATTATAT
111035223 TATTATTATA-
1 TATTATTATAT
111035233 TATTTATTAT
1 TA-TTATTAT
111035243 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.12
10 14 0.54
11 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATAT
Found at i:111035227 original size:17 final size:16
Alignment explanation
Indices: 111035205--111035242 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
111035195 ATGTTTCATA
111035205 TTATTATATTATATTAT
1 TTATTATATTATA-TAT
111035222 TTA-T-TATTATATAT
1 TTATTATATTATATAT
111035236 TTATTAT
1 TTATTAT
111035243 GTAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 2 0.11
17 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATATTATATAT
Found at i:111035236 original size:14 final size:15
Alignment explanation
Indices: 111035202--111035242 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
111035192 GTTATGTTTC
111035202 ATATTA-TTA-TATT
1 ATATTATTTATTATT
111035215 ATATTATTTATTATT
1 ATATTATTTATTATT
111035230 ATA-TATTTATTAT
1 ATATTATTTATTAT
111035243 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.23
14 13 0.50
15 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTATTTATTATT
Found at i:111035603 original size:13 final size:15
Alignment explanation
Indices: 111035540--111035607 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 15
111035530 CATTATTGTA
*
111035540 TTTATTATTACTGTT
1 TTTATTATTACTATT
*
111035555 TTT-TTATTAATTATT
1 TTTATTATT-ACTATT
*
111035570 TCTATTAATTACTATT
1 TTTATT-ATTACTATT
*
111035586 ATTATTATTA-T-TT
1 TTTATTATTACTATT
111035599 TTTATTATT
1 TTTATTATT
111035608 TATATATGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 10 0.23
14 6 0.14
15 13 0.30
16 11 0.26
17 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (15 bp):
TTTATTATTACTATT
Found at i:111035952 original size:126 final size:126
Alignment explanation
Indices: 111035709--111035945 Score: 411
Period size: 126 Copynumber: 1.9 Consensus size: 126
111035699 CATTGATCTT
* *
111035709 CTCTCAAAATTTTTCAAAATAAAGGTAATGTTCGGTATTTAAAGAATTTGAAGAATCATGCCCTA
1 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
*
111035774 AAGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCTTCTTACCAGTTCA
66 AAGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCTTCTTACCAGTTCA
* *
111035835 CTCTCAAAATTTTTTAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
* *
111035900 ACGTACTGGGTTTCACTTTCTTTGTTTGTTTTGAATATTCGAATAT
66 AAGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATAT
111035946 ACTCTTAAGG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 104 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (126 bp):
CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
AAGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCTTCTTACCAGTTCA
Found at i:111037925 original size:19 final size:19
Alignment explanation
Indices: 111037901--111037961 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
111037891 TGAGCTTCAG
111037901 TTAGCATTCGGGCTTCCAT
1 TTAGCATTCGGGCTTCCAT
*
111037920 TTAGCACTT-GTGTGCTT-CAG
1 TTAGCA-TTCG-G-GCTTCCAT
* *
111037940 TTAGCCTTCGGGCTTCCGT
1 TTAGCATTCGGGCTTCCAT
111037959 TTA
1 TTA
111037962 ACACTTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
18 4 0.12
19 14 0.42
20 11 0.33
21 4 0.12
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (19 bp):
TTAGCATTCGGGCTTCCAT
Found at i:111037940 original size:39 final size:39
Alignment explanation
Indices: 111037894--111037982 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
111037884 GCTCTGATGA
*
111037894 GCTTCAGTTAGCATTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCATTCGGGCTTCCATTTAACACTTGTGT
* * *
111037933 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTTT
1 GCTTCAGTTAGCATTCGGGCTTCCATTTAACACTTGTGT
*
111037972 GCTTTAGTTAG
1 GCTTCAGTTAG
111037983 ACTTTGGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCATTCGGGCTTCCATTTAACACTTGTGT
Found at i:111037992 original size:39 final size:39
Alignment explanation
Indices: 111037894--111037994 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
111037884 GCTCTGATGA
*
111037894 GCTTCAGTTAG-CATTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGAC-TTCGGGCTTCCATTTAACACTTGTGT
* * *
111037933 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTTT
1 GCTTCAGTTAGACTTCGGGCTTCCATTTAACACTTGTGT
* *
111037972 GCTTTAGTTAGACTTTGGGCTTC
1 GCTTCAGTTAGACTTCGGGCTTC
111037995 AGATCACGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 54 0.98
40 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (39 bp):
GCTTCAGTTAGACTTCGGGCTTCCATTTAACACTTGTGT
Found at i:111050925 original size:2 final size:2
Alignment explanation
Indices: 111050875--111050906 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
111050865 TTGTGCCTGC
*
111050875 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111050907 TTTATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111053198 original size:328 final size:328
Alignment explanation
Indices: 111052600--111053255 Score: 1231
Period size: 328 Copynumber: 2.0 Consensus size: 328
111052590 TTAGTCGAAA
*
111052600 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTTAATACT
1 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
* *
111052665 AATGTGACAAAATTGTGATAGTTCAAGGCCACAATCTGTTTTCAAACTCTTAAATTAAATGAGAA
66 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTCAAACTCTTAAATTAAATGAGAA
*
111052730 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCCTATTGTGGTGTTTTGACTGTTATTGA
131 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
111052795 AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAATGAATAGTAGATTTCATTGTTGTTTGA
196 AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAATGAATAGTAGATTTCATTGTTGTTTGA
*
111052860 AAGTAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
261 AAGGAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
111052925 TAG
326 TAG
111052928 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
1 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
*
111052993 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTTAAACTCTTAAATTAAATGAGAA
66 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTCAAACTCTTAAATTAAATGAGAA
111053058 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
131 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
*
111053123 AAATTTGTTGCTAATAAACAATCGTATAAGATGTAAAATGAATAGTAGATTTCATTGTTGTTTGA
196 AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAATGAATAGTAGATTTCATTGTTGTTTGA
* *
111053188 AAGGAATGTGACCATACAGTCTTCTGATTAAACAGGACCCGGAGCAAAAAAGTGCATGCTAGTAC
261 AAGGAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
111053253 TAG
326 TAG
111053256 TCTCGCTCCA
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
328 319 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (328 bp):
GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTCAAACTCTTAAATTAAATGAGAA
CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAATGAATAGTAGATTTCATTGTTGTTTGA
AAGGAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
TAG
Found at i:111064212 original size:29 final size:29
Alignment explanation
Indices: 111064170--111064227 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
111064160 CATAAAAGAG
*
111064170 GCCTAAGCAACAACTAGTGTTTTATAGTC
1 GCCTAAGCAACAACTAGTATTTTATAGTC
111064199 GCCTAAGCAACAACTAGTATTTTATAGTC
1 GCCTAAGCAACAACTAGTATTTTATAGTC
111064228 AATCACTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (29 bp):
GCCTAAGCAACAACTAGTATTTTATAGTC
Found at i:111064675 original size:16 final size:15
Alignment explanation
Indices: 111064656--111064699 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
111064646 CTTTTTATCT
111064656 CATCTTCTTTCTTTAC
1 CATCTT-TTTCTTTAC
111064672 CATCATTTTTCTTTAC
1 CATC-TTTTTCTTTAC
*
111064688 AATCTTATTTCT
1 CATCTT-TTTCT
111064700 CTTTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.57
Consensus pattern (15 bp):
CATCTTTTTCTTTAC
Found at i:111066214 original size:2 final size:2
Alignment explanation
Indices: 111066207--111066237 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
111066197 GTTGAATCAA
111066207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111066238 CTTTCTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111073532 original size:6 final size:6
Alignment explanation
Indices: 111073510--111073548 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
111073500 GTGGCGGTGG
* * *
111073510 AGGAGG AGGAAA AGGAGA AGGAGA AGCAGA AGGAGA AGG
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGG
111073549 CTGTTGTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGAGA
Found at i:111090635 original size:12 final size:12
Alignment explanation
Indices: 111090618--111090642 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111090608 CATGTCTTAA
111090618 TCTTTTTTTTTT
1 TCTTTTTTTTTT
111090630 TCTTTTTTTTTT
1 TCTTTTTTTTTT
111090642 T
1 T
111090643 GGTCAGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:111099840 original size:6 final size:6
Alignment explanation
Indices: 111099829--111099862 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
111099819 CCAAATTTTG
111099829 TTATCA TTATCA TTATCA TTATCA TTATCA TTAT
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTAT
111099863 AAAAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (6 bp):
TTATCA
Found at i:111100855 original size:28 final size:28
Alignment explanation
Indices: 111100821--111100887 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
111100811 AATTTTTAAA
111100821 GTTAATTTATTACTAATAACAGTATTTT
1 GTTAATTTATTACTAATAACAGTATTTT
111100849 GTTAATTTATTACTAATAACAGTATTTT
1 GTTAATTTATTACTAATAACAGTATTTT
111100877 GTTAATTTATT
1 GTTAATTTATT
111100888 TATTATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.52
Consensus pattern (28 bp):
GTTAATTTATTACTAATAACAGTATTTT
Found at i:111102513 original size:5 final size:5
Alignment explanation
Indices: 111102505--111102534 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
111102495 ATTATTAAGT
111102505 TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA
111102535 AAACATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:111102542 original size:15 final size:15
Alignment explanation
Indices: 111102509--111102542 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
111102499 TTAAGTTAAT
* *
111102509 ATAATATAATATAAT
1 ATAATATAATAAAAC
111102524 ATAATATAATAAAAC
1 ATAATATAATAAAAC
111102539 ATAA
1 ATAA
111102543 ATTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATATAATAAAAC
Found at i:111109559 original size:5 final size:5
Alignment explanation
Indices: 111109551--111109575 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
111109541 ATTATTAAGT
111109551 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
111109576 AAACACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:111115127 original size:22 final size:24
Alignment explanation
Indices: 111115090--111115134 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
111115080 TGAGAATGTC
*
111115090 TAGAAATTAAATAATT-AAGAGAG
1 TAGAAATTAAACAATTAAAGAGAG
111115113 TAGAAA-TAAACAATTAAAGAGA
1 TAGAAATTAAACAATTAAAGAGA
111115135 TCAAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.16, T:0.22
Consensus pattern (24 bp):
TAGAAATTAAACAATTAAAGAGAG
Found at i:111130400 original size:25 final size:27
Alignment explanation
Indices: 111130349--111130401 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
111130339 TAACAACTTT
* * *
111130349 TTTTTATATTAAAATATTATTATTTTA
1 TTTTTATATAAAAATATTATAAATTTA
111130376 TTTTTAT-TAAAAATATT-TAAATTTA
1 TTTTTATATAAAAATATTATAAATTTA
111130401 T
1 T
111130402 ATACAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 9 0.39
27 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTATATAAAAATATTATAAATTTA
Done.