Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 384 of 438
Found at i:119668658 original size:45 final size:45
Alignment explanation
Indices: 119668609--119668732 Score: 194
Period size: 45 Copynumber: 2.8 Consensus size: 45
119668599 TCTGGTATAG
*
119668609 TGCCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCGTGA
1 TGCCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCATGA
*
119668654 TGCCATAATGTCTTTCATATATGGTCTTACTCGTTTGATTCATGA
1 TGCCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCATGA
** * *
119668699 TGCCATAGCGTCTTTTAGCTATGGTCTTACTCGT
1 TGCCATAATGTCTTTCATCTATGGTCTTACTCGT
119668733 ATTTCAACCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.44
Consensus pattern (45 bp):
TGCCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCATGA
Found at i:119671875 original size:27 final size:24
Alignment explanation
Indices: 119671821--119671889 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 24
119671811 TGTTGATTCT
**
119671821 ATTTTTATTTCTATTTTA-TTTTTA
1 ATTTTTATTT-TAAATTATTTTTTA
119671845 ATTTTTAATTTTGAAAGTTATTTTTTA
1 ATTTTT-ATTTT-AAA-TTATTTTTTA
119671872 ATTTTTATTTTAAATTAT
1 ATTTTTATTTTAAATTAT
119671890 ATCATATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 11 0.28
25 8 0.21
26 8 0.21
27 12 0.31
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (24 bp):
ATTTTTATTTTAAATTATTTTTTA
Found at i:119672163 original size:25 final size:22
Alignment explanation
Indices: 119672109--119672163 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
119672099 TTTTTTTATC
119672109 AAATTTATTTTTATTAATATTT
1 AAATTTATTTTTATTAATATTT
* *
119672131 AAA-ATATTTTTATTTATAATTCT
1 AAATTTATTTTTATTAAT-ATT-T
119672154 ATAATTTATT
1 A-AATTTATT
119672164 AAAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 12 0.46
22 6 0.23
23 2 0.08
24 2 0.08
25 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATTTATTTTTATTAATATTT
Found at i:119672290 original size:31 final size:32
Alignment explanation
Indices: 119672255--119672316 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
119672245 TTGTTTAGTT
*
119672255 AAATTTAACTCTTAA-TCTTTT-AAAAAGAGTG
1 AAATTTAACTATTAACT-TTTTAAAAAAGAGTG
*
119672286 AAATTTGACTATTAACTTTTTAAAAAAGAGT
1 AAATTTAACTATTAACTTTTTAAAAAAGAGT
119672317 CTAATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.39
Consensus pattern (32 bp):
AAATTTAACTATTAACTTTTTAAAAAAGAGTG
Found at i:119672448 original size:15 final size:16
Alignment explanation
Indices: 119672428--119672464 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
119672418 ACAGTTCATA
*
119672428 ATTTTTTGAAT-TTTT
1 ATTTTTTAAATATTTT
119672443 A-TTTTTAAATATTTT
1 ATTTTTTAAATATTTT
119672458 ATTTTTT
1 ATTTTTT
119672465 TTATGTGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 6 0.32
16 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
ATTTTTTAAATATTTT
Found at i:119687002 original size:20 final size:22
Alignment explanation
Indices: 119686963--119687005 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
119686953 ATAGGAGAGT
*
119686963 AAAAAGAGAGAGAAATGGGCCA
1 AAAAAGAGAGAGAAACGGGCCA
119686985 AAAAAG-GAGA-AAACGGGCCA
1 AAAAAGAGAGAGAAACGGGCCA
119687005 A
1 A
119687006 CATGGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.56, C:0.12, G:0.30, T:0.02
Consensus pattern (22 bp):
AAAAAGAGAGAGAAACGGGCCA
Found at i:119691525 original size:54 final size:53
Alignment explanation
Indices: 119691448--119691553 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 53
119691438 TCTCAATACT
* *
119691448 AAAAAATAATTAAACTATTTTGTTCAAGACTGATAAT-ATTTTGTCTTACAAAA
1 AAAAAATAATTAAACTATTTTGTTCAAGACCGA-AATCATTGTGTCTTACAAAA
119691501 AAAAACATAATTAAACTATTTTGTTCAAGACCGAAATCATTGTGTCTTACAAA
1 AAAAA-ATAATTAAACTATTTTGTTCAAGACCGAAATCATTGTGTCTTACAAA
119691554 TTGAAAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (53 bp):
AAAAAATAATTAAACTATTTTGTTCAAGACCGAAATCATTGTGTCTTACAAAA
Found at i:119696401 original size:18 final size:17
Alignment explanation
Indices: 119696374--119696410 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
119696364 ATATATCAAA
119696374 GTCTTGATGAGTTAAAT
1 GTCTTGATGAGTTAAAT
*
119696391 GTCTATGATGAGTTGAAT
1 GTCT-TGATGAGTTAAAT
119696409 GT
1 GT
119696411 TGGTTATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (17 bp):
GTCTTGATGAGTTAAAT
Found at i:119699115 original size:8 final size:8
Alignment explanation
Indices: 119699102--119699131 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
119699092 AAAAATATGT
119699102 ATGAATGC
1 ATGAATGC
119699110 ATGAATGC
1 ATGAATGC
119699118 ATGAATGC
1 ATGAATGC
119699126 ATGAAT
1 ATGAAT
119699132 TTTCCATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (8 bp):
ATGAATGC
Found at i:119705698 original size:35 final size:37
Alignment explanation
Indices: 119705630--119705720 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 37
119705620 TCAATGATTT
119705630 GCAATCTTAGATATGATATGCAATCTTAAATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAAATATGATA
*
119705667 -CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAAATATGATA
119705702 TGCAATCTTAGA-A-GATATG
1 -GCAATCTTAGATATGATATG
119705721 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.42
36 19 0.38
37 10 0.20
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (37 bp):
GCAATCTTAGATATGATATGCAATCTTAAATATGATA
Found at i:119705720 original size:17 final size:19
Alignment explanation
Indices: 119705623--119705713 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
119705613 ATAATCTTCA
*
119705623 ATGATTTGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
119705642 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
119705661 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
119705678 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
119705696 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
119705714 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:119705739 original size:22 final size:22
Alignment explanation
Indices: 119705623--119705736 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
119705613 ATAATCTTCA
*
119705623 ATGATTTGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
119705642 ATGATATGCAATCTT--AA-AT
1 ATGATATGCAATCTTAGAAGAT
119705661 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
119705678 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
119705696 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
119705718 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
119705737 GATTTAATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.01
17 14 0.17
18 16 0.19
19 31 0.37
20 1 0.01
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:119714588 original size:78 final size:77
Alignment explanation
Indices: 119714448--119714742 Score: 452
Period size: 78 Copynumber: 3.8 Consensus size: 77
119714438 TCTTCACATC
* ** ***
119714448 GAAGTAGATCCAAGATGATTTGGCATC-CTTGCGTT-GAAAAGGAGCAGATCGAAGACATAGCAG
1 GAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
119714511 ATATGACCTTCATT
65 AT-TGACCTTCATT
*
119714525 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
119714590 TCTGACCTTCATT
66 T-TGACCTTCATT
*
119714603 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
119714668 TTGGACCTTCATT
66 TT-GACCTTCATT
*
119714681 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATTGAAGACATAGCA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
119714743 AATTTGGCTT
Statistics
Matches: 203, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
77 52 0.26
78 151 0.74
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (77 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
TTGACCTTCATT
Found at i:119714961 original size:78 final size:78
Alignment explanation
Indices: 119714853--119715121 Score: 414
Period size: 78 Copynumber: 3.4 Consensus size: 78
119714843 ATTCGACAGA
*
119714853 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
119714918 TGTATTAGACGGG
66 TGTATTAGACGGG
* * * *
119714931 GAGCAGATCAAAGACACAGCAGATTTGACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTC
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
*
119714996 TGTATTAGACGAG
66 TGTATTAGACGGG
** * *
119715009 GAGCAGATCGAAGACATAATAGAT-TGGACCTTCATTAAAGCAAATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
*
119715073 CTGTATTAGATGGG
65 CTGTATTAGACGGG
*
119715087 GAGTAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
119715122 GTGTTTGCAT
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 169 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGGG
Found at i:119715257 original size:43 final size:44
Alignment explanation
Indices: 119715152--119715327 Score: 246
Period size: 45 Copynumber: 4.0 Consensus size: 44
119715142 CCAAGATGAT
*
119715152 AGATTTGGCATCTCTGTATTAGACGGGGAGCACATCGGAGATAAC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCA-ATCGAAGATAAC
* *
119715197 AGATTTGGCATCTCTGTATTAGACGGGGAGCAATTGAAGA-AGC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAATCGAAGATAAC
* *
119715240 AGATTTGGCGTCTCTGTATTAGACGAGGAGCAAATCGAAGATAAC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGC-AATCGAAGATAAC
* * *
119715285 ATATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCA-ATCGAAGATA
119715328 GTAGATATCG
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
43 31 0.26
44 15 0.13
45 72 0.61
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAATCGAAGATAAC
Found at i:119715301 original size:88 final size:88
Alignment explanation
Indices: 119715152--119715316 Score: 276
Period size: 88 Copynumber: 1.9 Consensus size: 88
119715142 CCAAGATGAT
* * *
119715152 AGATTTGGCATCTCTGTATTAGACGGGGAGCACATCGGAGATAACAGATTTGGCATCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
119715217 AGACGGGGAGCAATTGAAGAAGC
66 AGACGGGGAGCAATTGAAGAAGC
* * *
119715240 AGATTTGGCGTCTCTGTATTAGACGAGGAGCAAATCGAAGATAACATATTTGGCGTCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
119715305 AGACGGGGAGCA
66 AGACGGGGAGCA
119715317 GATCAAAGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (88 bp):
AGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
AGACGGGGAGCAATTGAAGAAGC
Found at i:119715726 original size:22 final size:23
Alignment explanation
Indices: 119715684--119715743 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
119715674 ATAATCTTCA
119715684 ATGATT-TGCAATC-T--AAGAT
1 ATGATTATGCAATCTTAGAAGAT
119715703 ATGA-TATGCAATCTTAGAAGAT
1 ATGATTATGCAATCTTAGAAGAT
* *
119715725 ATGATTTTGTAATCTTAGA
1 ATGATTATGCAATCTTAGA
119715744 GATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 11 0.32
20 1 0.03
22 9 0.26
23 12 0.35
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATGATTATGCAATCTTAGAAGAT
Found at i:119715746 original size:22 final size:21
Alignment explanation
Indices: 119715684--119715746 Score: 76
Period size: 19 Copynumber: 3.0 Consensus size: 21
119715674 ATAATCTTCA
119715684 ATGATTTGCAATC-TA-AGAT
1 ATGATTTGCAATCTTAGAGAT
*
119715703 ATGATATGCAATCTTAGAAGAT
1 ATGATTTGCAATCTTAG-AGAT
*
119715725 ATGATTTTGTAATCTTAGAGAT
1 ATGA-TTTGCAATCTTAGAGAT
119715747 TTAATTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
22 12 0.32
23 11 0.30
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGATTTGCAATCTTAGAGAT
Found at i:119716033 original size:18 final size:18
Alignment explanation
Indices: 119716010--119716045 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
119716000 TGTTTCCCGG
119716010 ATTTTTTT-ATATATTTTA
1 ATTTTTTTAATA-ATTTTA
119716028 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
119716046 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:119730980 original size:17 final size:17
Alignment explanation
Indices: 119730960--119731006 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
119730950 CATAAACCTG
*
119730960 AAGTTTTCTTAAAATTA
1 AAGTTTTCTTAAAATGA
*
119730977 AAGTTTTCTAAAAATGA
1 AAGTTTTCTTAAAATGA
*
119730994 ACGGTTTTCTTAA
1 A-AGTTTTCTTAA
119731007 CAAAAAGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (17 bp):
AAGTTTTCTTAAAATGA
Found at i:119733803 original size:29 final size:29
Alignment explanation
Indices: 119733770--119733825 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
119733760 TATCTGGACT
*
119733770 AATTTTTGGTGGCATTTATCGACGACACC
1 AATTTCTGGTGGCATTTATCGACGACACC
119733799 AATTTCTGGTGGCATTTATCGACGACA
1 AATTTCTGGTGGCATTTATCGACGACA
119733826 TTTTGGTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (29 bp):
AATTTCTGGTGGCATTTATCGACGACACC
Found at i:119738642 original size:45 final size:45
Alignment explanation
Indices: 119738578--119738707 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
119738568 GTTGTACAGT
* *
119738578 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
119738623 ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
119738668 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
119738708 ATAAATTCGG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 12 0.16
44 14 0.18
45 51 0.66
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:119741367 original size:60 final size:60
Alignment explanation
Indices: 119741281--119741415 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 60
119741271 GTGTTAACTT
* * *
119741281 GGCCTTAGCCCATATTAATATTAATCTGGGCCATAGCCCT-TTAC-GGTATC-AGAGTATATTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATATTG
* * *
119741342 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
*
119741402 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
119741416 TAACATAGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 52 0.81
61 11 0.17
62 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
Found at i:119759630 original size:5 final size:5
Alignment explanation
Indices: 119759607--119759667 Score: 97
Period size: 5 Copynumber: 12.4 Consensus size: 5
119759597 CATCAGCTTC
* *
119759607 TGATA TG-TT TGAAA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
119759656 TGATA TGATA TG
1 TGATA TGATA TG
119759668 TGATGAAGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
4 3 0.06
5 48 0.94
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:119761367 original size:16 final size:17
Alignment explanation
Indices: 119761346--119761379 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
119761336 TGTTTTGATG
119761346 TAAATGAATCAAA-ATA
1 TAAATGAATCAAAGATA
*
119761362 TAAATGTATCAAAGATA
1 TAAATGAATCAAAGATA
119761379 T
1 T
119761380 GATGAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
TAAATGAATCAAAGATA
Found at i:119761636 original size:68 final size:68
Alignment explanation
Indices: 119761527--119761676 Score: 237
Period size: 68 Copynumber: 2.2 Consensus size: 68
119761517 AATTCTCCAC
* *
119761527 AGCTCGTTTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAGGCCCATTT
1 AGCTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAAGCCCATTT
119761592 CAT
66 CAT
* *
119761595 AGCTCGTGTGAGTAGCATCGTGTAGCTTACATTCTGGCCCACTACTCGTGTGAGCAAGCCCATTT
1 AGCTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAAGCCCATTT
*
119761660 CAC
66 CAT
* *
119761663 AGTTTGTGTGAGCA
1 AGCTCGTGTGAGCA
119761677 TGGATGTAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (68 bp):
AGCTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAAGCCCATTT
CAT
Found at i:119769484 original size:45 final size:45
Alignment explanation
Indices: 119769317--119769535 Score: 263
Period size: 45 Copynumber: 4.9 Consensus size: 45
119769307 TATCGTACGG
*
119769317 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGAAAT--CGGTGAGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTAT--AATGCCGGTGAGA
* * *
119769362 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
119769407 TGCTATTCAGGCCTTTGAGCCTAGCAGGCTATAATTCCGGTGAGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
119769452 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
119769497 TGA-TA-TC-GAG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 T-ACTATTCAG-GCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
119769536 GATGAATTCG
Statistics
Matches: 158, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
42 10 0.06
43 21 0.13
44 3 0.02
45 123 0.78
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:119770749 original size:43 final size:43
Alignment explanation
Indices: 119770701--119770785 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
119770691 CATATTTCAC
119770701 TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATATT
1 TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATATT
* * * *
119770744 TTCTCATCTTATATGCATTTCTCATCTTTTCCATTTCAATAT
1 TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATAT
119770786 CAATCACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.02, T:0.49
Consensus pattern (43 bp):
TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATATT
Found at i:119770780 original size:16 final size:18
Alignment explanation
Indices: 119770743--119770780 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
119770733 AATTCAATAT
*
119770743 TTTCTCATCTTATATGCA
1 TTTCTCATCTTATATCCA
119770761 TTTCTCATCTT-T-TCCA
1 TTTCTCATCTTATATCCA
119770777 TTTC
1 TTTC
119770781 AATATCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTCTCATCTTATATCCA
Found at i:119785336 original size:30 final size:30
Alignment explanation
Indices: 119785300--119785360 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
119785290 TTCCCGAGCC
*
119785300 TAGGGGCAAAAGTATAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* * *
119785330 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
119785360 T
1 T
119785361 GTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:119788678 original size:26 final size:26
Alignment explanation
Indices: 119788642--119788697 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
119788632 TGATAACAAT
119788642 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
119788668 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
119788694 TGAT
1 TGAT
119788698 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:119790213 original size:26 final size:26
Alignment explanation
Indices: 119790183--119790235 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
119790173 TTTATAGTTT
119790183 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
119790209 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
119790235 T
1 T
119790236 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:119797357 original size:40 final size:40
Alignment explanation
Indices: 119797283--119797466 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
119797273 GCTACTCGTT
*
119797283 CAAATGCCTTCGGG-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
119797322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
119797362 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
119797401 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
119797442 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
119797467 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 47 0.37
40 64 0.51
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:119797382 original size:79 final size:79
Alignment explanation
Indices: 119797285--119797466 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 79
119797275 TACTCGTTCA
* *
119797285 AATGCCTTCGGGCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
119797348 TTTAGTAAC-TCGCACC
64 TATAGTAACTTAGCA-C
**
119797364 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
119797429 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
119797443 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
119797467 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 71 0.79
80 16 0.18
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:119801556 original size:26 final size:26
Alignment explanation
Indices: 119801527--119801576 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
119801517 TACAGTTTTA
119801527 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
119801553 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
119801577 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:119805013 original size:34 final size:34
Alignment explanation
Indices: 119804970--119805062 Score: 141
Period size: 34 Copynumber: 2.7 Consensus size: 34
119804960 ATTTTTTTTA
* *
119804970 AAAAATAATTAAATTAGGTTTTAGGGGTTTAAAG
1 AAAATTAATTAAATTAGGGTTTAGGGGTTTAAAG
* * *
119805004 TAAATTAATTAAATTAGGGTTTATGGTTTTAAAG
1 AAAATTAATTAAATTAGGGTTTAGGGGTTTAAAG
119805038 AAAATTAATTAAATTAGGGTTTAGG
1 AAAATTAATTAAATTAGGGTTTAGG
119805063 TTTTTTCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGGTTTAGGGGTTTAAAG
Found at i:119805598 original size:124 final size:124
Alignment explanation
Indices: 119805161--119805656 Score: 518
Period size: 124 Copynumber: 4.0 Consensus size: 124
119805151 TTTGTTTCTA
* *
119805161 AAAAATTAATTTTGAGAAGATGATTCTGAAAAAATAATGTCAAAAATGCTTTAAG-AGGATGC-C
1 AAAAA-TAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCAC
* * * * *
119805224 TGTTAGAAAAAGTACTG-AAAAAGCTCTCATGTGGATGCTCTTTTTCTATAATAGTTCCTG
65 TGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTA-CATAGTTCCTG
* * *
119805284 AAAAAATAATTTTGAGAAGAC-AGTTCTGAAAAAAATAATGTAAAAAACGCTTCAAGCATGATGC
1 -AAAAATAATTTTGAGAAGACGA-TTCTG-AAAAAATAATGTCAAAAATGCTTCAAGCAGGATGC
* * * * *
119805348 ACTATCAGCAAAGTTATTGAAAAAAACTC-CACGTGGATGCTCTTTTTCTACAATAGTTCTTG
63 ACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTAC-ATAGTTCCTG
* * * * * * *
119805410 AAATAATATTTTTAAGAAAATGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGTAGGATGCAC
1 AAA-AATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCAC
* * * * * *
119805475 TGTCAGCAAAATTACTGAAAAAAGCTCTCACATGAACGTTCTTTTTCTACGTAATTCCTG
65 TGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACATAGTTCCTG
* * * * * *
119805535 AAAAATAATTTTGAGAAGACGATTATGAAAAAGTAGTTTTAGAAATGCTTCAAGCAGGATGCACT
1 AAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACT
* * * * *
119805600 GTCAGCAAAATTACTAAAAAAAGGT-TCCATGTGGACGCTCTTTTTCTATAGTAGTTC
66 GTCAGCAAAATTACTGAAAAAAGCTCT-CACGTGGATGCTCTTTTTCTACA-TAGTTC
119805657 TTGCTTGGTA
Statistics
Matches: 305, Mismatches: 56, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
122 1 0.00
123 20 0.07
124 120 0.39
125 79 0.26
126 77 0.25
127 8 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (124 bp):
AAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACT
GTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTCTTTTTCTACATAGTTCCTG
Found at i:119809187 original size:18 final size:18
Alignment explanation
Indices: 119809150--119809187 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
119809140 GGAAAAGGAA
* *
119809150 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGAAT
119809168 ACATATAAGGGCTAGAAT
1 ACATATAAGGGCTAGAAT
119809186 AC
1 AC
119809188 GCACCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGAAT
Found at i:119811494 original size:31 final size:30
Alignment explanation
Indices: 119811423--119811505 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 30
119811413 CTTTTAAGTT
**
119811423 TTTTTAAAAATT-TTAATTAGGGCCTTTAAAA
1 TTTTTAAAAATTATT-ATTA-AACCTTTAAAA
*
119811454 -TCTTAAAAATTATTATTAAACCTTTGAAAA
1 TTTTTAAAAATTATTATTAAACCTTT-AAAA
**
119811484 TTTTTAAAAATTACAATTAAAC
1 TTTTTAAAAATTATTATTAAAC
119811506 TCTTAAATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 5 0.12
30 18 0.42
31 20 0.47
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTTTAAAAATTATTATTAAACCTTTAAAA
Found at i:119814456 original size:30 final size:29
Alignment explanation
Indices: 119814422--119814487 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
119814412 ATGTTAAAAT
*
119814422 TATACATGAA-TATGGTTTAATGTGTAATTG
1 TATACATGAACTATGATTT--TGTGTAATTG
* *
119814452 TATACATGAACTTTGATTTTGTGTAATTT
1 TATACATGAACTATGATTTTGTGTAATTG
119814481 TATACAT
1 TATACAT
119814488 AAAATTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.50
30 10 0.31
31 6 0.19
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGTAATTG
Found at i:119814501 original size:29 final size:29
Alignment explanation
Indices: 119814442--119814500 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
119814432 TATGGTTTAA
*
119814442 TGTGTAATTGTATACATGAACTTTGATTT
1 TGTGTAATTGTATACATAAACTTTGATTT
* *
119814471 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTGTATACAT-AAACTTTGATTT
119814501 GATTTAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.51
Consensus pattern (29 bp):
TGTGTAATTGTATACATAAACTTTGATTT
Found at i:119814679 original size:31 final size:30
Alignment explanation
Indices: 119814620--119814714 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
119814610 TATTTATTTC
* * *
119814620 TTTAAATATGTATGATTAAATCAAAATTAAAA
1 TTTAAA-ATATATAATTAAA-CCAAATTAAAA
*
119814652 TTTAAAATATATATTTAAACCATAATTAAAA
1 TTTAAAATATATAATTAAACCA-AATTAAAA
* * * *
119814683 ATTCACATATATAATTACACCAAATTAAAA
1 TTTAAAATATATAATTAAACCAAATTAAAA
119814713 TT
1 TT
119814715 CAATGTACAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
30 11 0.21
31 35 0.67
32 6 0.12
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (30 bp):
TTTAAAATATATAATTAAACCAAATTAAAA
Found at i:119818871 original size:2 final size:2
Alignment explanation
Indices: 119818864--119818888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
119818854 CTGAGGTTTT
119818864 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
119818889 TTTCTAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119820366 original size:6 final size:6
Alignment explanation
Indices: 119820355--119820395 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
119820345 GTACATTGAA
119820355 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
119820396 AATTTATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TATAAT
Found at i:119821724 original size:26 final size:25
Alignment explanation
Indices: 119821683--119821733 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
119821673 AACTTTTGAC
119821683 AATTTAAAAATAAAAAG-TGAAAATT
1 AATTTAAAAATAAAAAGAT-AAAATT
*
119821708 AATTTAAAAAATTAAAAGATAAAATT
1 AATTT-AAAAATAAAAAGATAAAATT
119821734 TATTCTGGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 17 0.74
27 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (25 bp):
AATTTAAAAATAAAAAGATAAAATT
Found at i:119834162 original size:10 final size:10
Alignment explanation
Indices: 119834147--119834184 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
119834137 TATGTTTAGT
119834147 TTTAATTAAG
1 TTTAATTAAG
119834157 TTTAATTAA-
1 TTTAATTAAG
119834166 TTTAATTAAG
1 TTTAATTAAG
*
119834176 ATTAATTAA
1 TTTAATTAA
119834185 TTACTAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (10 bp):
TTTAATTAAG
Found at i:119834171 original size:19 final size:19
Alignment explanation
Indices: 119834147--119834186 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
119834137 TATGTTTAGT
*
119834147 TTTAATTAAGTTTAATTAA
1 TTTAATTAAGATTAATTAA
119834166 TTTAATTAAGATTAATTAA
1 TTTAATTAAGATTAATTAA
119834185 TT
1 TT
119834187 ACTAACCAAA
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:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTAATTAAGATTAATTAA
Found at i:119835405 original size:120 final size:120
Alignment explanation
Indices: 119835162--119835577 Score: 380
Period size: 120 Copynumber: 3.5 Consensus size: 120
119835152 GCTCGAACGA
* * * * * * *
119835162 GTAACATGATGTCATTTTAAAGGTTTAGC-CAGACAAGTAA-CTCAACACGAATATATGTTCAGC
1 GTAACCTGATGTCATTTTAAAGGTTTAGCTCAAACAAGTAACCT-GACATGTATATATTTTCAAC
* * * * * * *
119835225 TCA-GACGATC-ATTG-GGTATACCAAAGATATTTGTGACACAGGTTTAG-CTCGGA-TG
65 T-AGGACAAACAATTGATGTAT--CAAGGATACTTGGGACATAGGTTTAGCCT-GGACTG
* *
119835280 AGTAACCTGATGTCAATTTAAAGGTTTAGACT-AAACAAGTAACCTGACATGTATATATTTTCAG
1 -GTAACCTGATGTCATTTTAAAGGTTTAG-CTCAAACAAGTAACCTGACATGTATATATTTTCAA
* ** *
119835344 CTTGGATGAGCAATTGATGTATCAAGGATACTTGGGACATAGGTTTAGCCTGGACTG
64 CTAGGACAAACAATTGATGTATCAAGGATACTTGGGACATAGGTTTAGCCTGGACTG
* * * **
119835401 GTAACCTGATGTCATTTTAAAGATTTAGCTCGAACAAGTAACTTGTTATGTATATATTTTCAACT
1 GTAACCTGATGTCATTTTAAAGGTTTAGCTCAAACAAGTAACCTGACATGTATATATTTTCAACT
* * * * **
119835466 AGGACAAACGATTGATGTTTCGAGAATACTTGGGACATAGGTTTAGCCTAAACTG
66 AGGACAAACAATTGATGTATCAAGGATACTTGGGACATAGGTTTAGCCTGGACTG
* ** * * *
119835521 GTAACCTGATGTCGTTTTAAAGGTTTAGCTCGGACGAGTAACTTGACATGTGTATAT
1 GTAACCTGATGTCATTTTAAAGGTTTAGCTCAAACAAGTAACCTGACATGTATATAT
119835578 ATATTAAACT
Statistics
Matches: 249, Mismatches: 39, Indels: 17
0.82 0.13 0.06
Matches are distributed among these distances:
119 28 0.11
120 207 0.83
121 10 0.04
122 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (120 bp):
GTAACCTGATGTCATTTTAAAGGTTTAGCTCAAACAAGTAACCTGACATGTATATATTTTCAACT
AGGACAAACAATTGATGTATCAAGGATACTTGGGACATAGGTTTAGCCTGGACTG
Found at i:119852123 original size:51 final size:48
Alignment explanation
Indices: 119852028--119852123 Score: 113
Period size: 51 Copynumber: 1.9 Consensus size: 48
119852018 CAGATTGCCA
* *
119852028 GGCTCACACGCCCATGTGGCCTGTCCGTGTGAGCCCGCACGCCTGTAT
1 GGCTCACACGCCCATGTGGCCTGTCCGTGTGAGACCACACGCCTGTAT
* *
119852076 GGCTCACACAGCCCAATTTGGCCTTGTCCGTGTG-GATCACACGGCCTG
1 GGCTCACAC-GCCC-ATGTGGCC-TGTCCGTGTGAGACCACAC-GCCTG
119852124 GTCCAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 9 0.22
49 4 0.10
50 12 0.30
51 15 0.38
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.22
Consensus pattern (48 bp):
GGCTCACACGCCCATGTGGCCTGTCCGTGTGAGACCACACGCCTGTAT
Found at i:119855146 original size:40 final size:40
Alignment explanation
Indices: 119855071--119855239 Score: 128
Period size: 41 Copynumber: 4.2 Consensus size: 40
119855061 TCAAAAATTG
* ***
119855071 TAAAATACAGAGCAATAGCGGCG-TTTTACCAAAAACGTCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTT-GGTAAAACG-CGC
*
119855112 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGTAAAACGCTTC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGC-GC
* * *
119855152 TAAAAGTC-GAACTAATAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAGACAGAGC-AATAGCGGCGCTTTTGGTAAAACG-CGC
* * * * ** *
119855193 TAAAAGTCGGACCAATAGCAGCGCTTTTGAAAAAACACCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAAC-GCGC
119855234 TAAAAG
1 TAAAAG
119855240 TCATATAATC
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
39 1 0.01
40 32 0.30
41 70 0.65
42 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TAAAAGACAGAGCAATAGCGGCGCTTTTGGTAAAACGCGC
Found at i:119855176 original size:41 final size:41
Alignment explanation
Indices: 119855123--119855241 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
119855113 AAAAACAGAG
**
119855123 CAATAGCGGCGCTTTTGGTAAAACGCTTCTAAAAGTCGAAC
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGAAC
* * *
119855164 TAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGTCGGAC
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGAAC
* ** *
119855205 CAATAGCAGCGCTTTTGAAAAAACACCGCTAAAAGTC
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
119855242 ATATAATCCT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGAAC
Found at i:119855325 original size:15 final size:16
Alignment explanation
Indices: 119855293--119855326 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
119855283 ACTAATCTAT
*
119855293 AACCCCTAAAATACTA
1 AACCCCTAAAACACTA
119855309 AACCCCT-AAACACTA
1 AACCCCTAAAACACTA
119855324 AAC
1 AAC
119855327 TATAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (16 bp):
AACCCCTAAAACACTA
Found at i:119855466 original size:7 final size:7
Alignment explanation
Indices: 119855454--119855517 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
119855444 TTTATTTTTT
*
119855454 GGTTTAC
1 GGTTTAA
119855461 GGTTTAA
1 GGTTTAA
**
119855468 TATTTAA
1 GGTTTAA
119855475 GGTTTAA
1 GGTTTAA
* *
119855482 GGTCTAT
1 GGTTTAA
*
119855489 GGTTTAG
1 GGTTTAA
*
119855496 GGTTTTAT
1 GG-TTTAA
119855504 GGTTTAA
1 GGTTTAA
119855511 GGTTTAA
1 GGTTTAA
119855518 TGACCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:119855506 original size:15 final size:15
Alignment explanation
Indices: 119855470--119855515 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
119855460 CGGTTTAATA
*
119855470 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
119855484 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
119855499 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
119855514 TT
1 TT
119855516 AATGACCATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:119856111 original size:7 final size:7
Alignment explanation
Indices: 119856099--119856178 Score: 65
Period size: 7 Copynumber: 11.4 Consensus size: 7
119856089 CATTAAACCG
119856099 AAATAAA
1 AAATAAA
119856106 AAAT--A
1 AAATAAA
*
119856111 AACTCAAA
1 AAAT-AAA
*
119856119 AATTAAA
1 AAATAAA
*
119856126 AATTAAA
1 AAATAAA
119856133 AAATTAAA
1 AAA-TAAA
*
119856141 AAATTAA
1 AAATAAA
*
119856148 AAATTAA
1 AAATAAA
119856155 AAATAAA
1 AAATAAA
* *
119856162 AATTTAA
1 AAATAAA
119856169 AAATAAA
1 AAATAAA
119856176 AAA
1 AAA
119856179 CTTAAAAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 4 0.07
7 45 0.75
8 11 0.18
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATAAA
Found at i:119856185 original size:7 final size:7
Alignment explanation
Indices: 119856116--119856188 Score: 94
Period size: 7 Copynumber: 10.0 Consensus size: 7
119856106 AAATAAACTC
119856116 AAAAATT
1 AAAAATT
119856123 AAAAATT
1 AAAAATT
119856130 AAAAAATT
1 -AAAAATT
119856138 AAAAAATT
1 -AAAAATT
119856146 AAAAATT
1 AAAAATT
119856153 AAAAA-T
1 AAAAATT
119856159 AAAAATTT
1 AAAAA-TT
*
119856167 AAAAATA
1 AAAAATT
119856174 AAAAACTT
1 AAAAA-TT
119856182 AAAAATT
1 AAAAATT
119856189 TAATATTTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.10
7 27 0.45
8 27 0.45
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:119856302 original size:17 final size:18
Alignment explanation
Indices: 119856262--119856301 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
119856252 TCCAAAAGAG
119856262 AAAAATAAAAAAAATGTT
1 AAAAATAAAAAAAATGTT
*
119856280 AAAAATAAAAAAAATTTT
1 AAAAATAAAAAAAATGTT
119856298 AAAA
1 AAAA
119856302 TTAATCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATAAAAAAAATGTT
Found at i:119861336 original size:25 final size:24
Alignment explanation
Indices: 119861308--119861366 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
119861298 ATATTTAATC
119861308 TAATTTTTATTATTTA-TTTTAGTTT
1 TAATTTTTATT-TTTATTTTTA-TTT
*
119861333 TAATTTTAAATTTTTATTTTTATTT
1 TAATTTT-TATTTTTATTTTTATTT
119861358 TAATATTTT
1 TAAT-TTTT
119861367 TAGTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TAATTTTTATTTTTATTTTTATTT
Found at i:119861353 original size:20 final size:20
Alignment explanation
Indices: 119861324--119861371 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
119861314 TTATTATTTA
119861324 TTTTAGTTTTAATTTTAA-AT
1 TTTTAGTTTT-ATTTTAATAT
*
119861344 TTTTATTTTTATTTTAATAT
1 TTTTAGTTTTATTTTAATAT
119861364 TTTTAGTT
1 TTTTAGTT
119861372 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTAGTTTTATTTTAATAT
Found at i:119865404 original size:18 final size:19
Alignment explanation
Indices: 119865369--119865407 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
119865359 ATATAATTTT
119865369 TTTAAAAATAAAATAAAAA
1 TTTAAAAATAAAATAAAAA
*
119865388 TTTAAAATTCAAAA-AAAAA
1 TTTAAAAAT-AAAATAAAAA
119865407 T
1 T
119865408 CTCAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TTTAAAAATAAAATAAAAA
Found at i:119868090 original size:21 final size:21
Alignment explanation
Indices: 119868066--119868142 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
119868056 TGTGTCCCCG
* *
119868066 CCACATGGGCGTGCGTGGCCT
1 CCACACGGGCGTGTGTGGCCT
*
119868087 CCACACAGGCGTGTGTGGCCT
1 CCACACGGGCGTGTGTGGCCT
*
119868108 CCACACGGGCATGTGTGGCCT
1 CCACACGGGCGTGTGTGGCCT
* *
119868129 CCACATGAGCGTGT
1 CCACACGGGCGTGT
119868143 AGACCCCTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.19
Consensus pattern (21 bp):
CCACACGGGCGTGTGTGGCCT
Found at i:119876323 original size:25 final size:26
Alignment explanation
Indices: 119876289--119876339 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
119876279 TTAGAGAAAT
119876289 GGACTAAGTGATC-TTTAATGCAAAA
1 GGACTAAGTGATCTTTTAATGCAAAA
119876314 GGACTAAGTGATCTTTTAATGCAAAA
1 GGACTAAGTGATCTTTTAATGCAAAA
119876340 CTGAATTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (26 bp):
GGACTAAGTGATCTTTTAATGCAAAA
Found at i:119877025 original size:20 final size:19
Alignment explanation
Indices: 119876996--119877033 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
119876986 AAAGTAGTGT
*
119876996 AATTTATTTTCTTAGAATA
1 AATTTATTTTCTGAGAATA
119877015 AATTCTATTTTCTGAGAAT
1 AATT-TATTTTCTGAGAAT
119877034 TACAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
AATTTATTTTCTGAGAATA
Found at i:119887029 original size:27 final size:27
Alignment explanation
Indices: 119886991--119887158 Score: 223
Period size: 27 Copynumber: 6.2 Consensus size: 27
119886981 CAGCATGGCT
* * *
119886991 ACCAGAACAGATA-ATGTGACAGAGTC
1 ACCAGATCAGATATATGTGGCAGAGCC
*
119887017 ACCAGATACAGATA-ATCGTGGCAGGGCC
1 ACCAGAT-CAGATATAT-GTGGCAGAGCC
*
119887045 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGATCAGATATATGTGGCAGAGCC
*
119887072 ACCAGATCAGATATTTGTGGCAGAGCC
1 ACCAGATCAGATATATGTGGCAGAGCC
*
119887099 ACCAGATCAGATATTTGTGGCAGAGCC
1 ACCAGATCAGATATATGTGGCAGAGCC
* *
119887126 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGATCAGATATATGTGGCAGAGCC
119887153 ACCAGA
1 ACCAGA
119887159 ACGCTTCCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
26 6 0.05
27 108 0.83
28 16 0.12
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
ACCAGATCAGATATATGTGGCAGAGCC
Found at i:119887050 original size:54 final size:54
Alignment explanation
Indices: 119886991--119887160 Score: 252
Period size: 54 Copynumber: 3.1 Consensus size: 54
119886981 CAGCATGGCT
* * * * *
119886991 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGGGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCC
119887045 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCC
* * *
119887099 ACCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCC
119887153 ACCAGAAC
1 ACCAGAAC
119887161 GCTTCCTCCA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
54 88 0.83
55 18 0.17
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCC
Found at i:119888814 original size:26 final size:26
Alignment explanation
Indices: 119888778--119888887 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
119888768 CATGAAATTC
119888778 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
119888804 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
119888830 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
119888856 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
119888882 TTATCA
1 TTATCA
119888888 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:119889754 original size:215 final size:215
Alignment explanation
Indices: 119889383--119889815 Score: 767
Period size: 215 Copynumber: 2.0 Consensus size: 215
119889373 AATCTTATAT
* *
119889383 TTTTGTCTGCTAATTGAATGCTCATCCTAGTCTGTTTGGGTTTCCCAAGACCTAGTTGTTTAAAC
1 TTTTGTCTACTAATTGAATGCTCATCCTAGTCTGTTCGGGTTTCCCAAGACCTAGTTGTTTAAAC
* *
119889448 ATTTTGTAAAGCATGACGTTAATACTAGTCCCTAAATCAGCTAGTGCATTATTAACTTCTAAACT
66 ATTTTGTAAAGCATGACGTTAATACTAGTCCCTAAATCAGCTAATGCATTATTAACATCTAAACT
*
119889513 ACCAATTAAGCAAGGAATTGTAAAACTCCCTAGATCTTTGAATTTGTTGGGTACTTTATTCTGTA
131 ACCAATTAAGCAAGGAATTGTAAAACTCCCTAGATCTTTCAATTTGTTGGGTACTTTATTCTGTA
*
119889578 GAATAGCAGAGCAAACTGGG
196 GAATAGCAGAGCAAACTGCG
*
119889598 TTTTGTCTACTAATTGAATGCTCATCCTAGTCTGTTCGGGTTTCCCAAGACCTATTTGTTTAAAC
1 TTTTGTCTACTAATTGAATGCTCATCCTAGTCTGTTCGGGTTTCCCAAGACCTAGTTGTTTAAAC
* *
119889663 ATTTTGTAAGGCATGATGTTAATACTAGTCCCTAAATCAGCTAATGCATTATTAACATCTAAACT
66 ATTTTGTAAAGCATGACGTTAATACTAGTCCCTAAATCAGCTAATGCATTATTAACATCTAAACT
* *
119889728 ACCAATTAAGCAAGGAATTGTAAAACTCCCTGGATCTTTCAATTTGTTGGGTAGTTTATTCTGTA
131 ACCAATTAAGCAAGGAATTGTAAAACTCCCTAGATCTTTCAATTTGTTGGGTACTTTATTCTGTA
119889793 GAATAGCAGAGCAAACTGCG
196 GAATAGCAGAGCAAACTGCG
119889813 TTT
1 TTT
119889816 AGCTTCACAT
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
215 207 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (215 bp):
TTTTGTCTACTAATTGAATGCTCATCCTAGTCTGTTCGGGTTTCCCAAGACCTAGTTGTTTAAAC
ATTTTGTAAAGCATGACGTTAATACTAGTCCCTAAATCAGCTAATGCATTATTAACATCTAAACT
ACCAATTAAGCAAGGAATTGTAAAACTCCCTAGATCTTTCAATTTGTTGGGTACTTTATTCTGTA
GAATAGCAGAGCAAACTGCG
Found at i:119891614 original size:19 final size:19
Alignment explanation
Indices: 119891577--119891614 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
119891567 ACCTACCAAA
*
119891577 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
119891596 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
119891615 TTAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:119894183 original size:82 final size:82
Alignment explanation
Indices: 119894046--119894210 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
119894036 ACAATTTTAG
119894046 GGAATCATGACTGCGGACCCAAATCAACTTTTAAAGTGTTTCTTACAAATTTGCGATACATTCAA
1 GGAATCATGACTGCGGACCCAAATCAACTTTTAAAGTGTTTCTTACAAATTTGCGATACATTCAA
*
119894111 ATTTAATAGTGCCACTA
66 ATTTAATAGAGCCACTA
119894128 GGAATCATGACTGCGGACCCAAATCAACTTTTAAAGTGTTTCTTACAAATTTGCGATACATTCAA
1 GGAATCATGACTGCGGACCCAAATCAACTTTTAAAGTGTTTCTTACAAATTTGCGATACATTCAA
*
119894193 ATTTAATAGAGTCACTA
66 ATTTAATAGAGCCACTA
119894210 G
1 G
119894211 TGACACTATT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (82 bp):
GGAATCATGACTGCGGACCCAAATCAACTTTTAAAGTGTTTCTTACAAATTTGCGATACATTCAA
ATTTAATAGAGCCACTA
Found at i:119896652 original size:247 final size:247
Alignment explanation
Indices: 119896216--119896709 Score: 988
Period size: 247 Copynumber: 2.0 Consensus size: 247
119896206 GAGGAATAGA
119896216 CTATGTCTATTTATAGGCTTGCAAAGCCATATTCTAGTAGGATTGAAACACCTTATCCTAATCAA
1 CTATGTCTATTTATAGGCTTGCAAAGCCATATTCTAGTAGGATTGAAACACCTTATCCTAATCAA
119896281 TATAAAATAGATGGAGTTTAATAAGGTTTAAAAACCTTATTCTAAAATAAAATAAAAGAAGTCTA
66 TATAAAATAGATGGAGTTTAATAAGGTTTAAAAACCTTATTCTAAAATAAAATAAAAGAAGTCTA
119896346 GTTCTATATGGATTTTACTTTTATTTTATTTTCCATCGTATTTTATTTAAATAAGAATTTGGGTC
131 GTTCTATATGGATTTTACTTTTATTTTATTTTCCATCGTATTTTATTTAAATAAGAATTTGGGTC
119896411 ACTTAATTCTAACAATCTCCACCTTGACACAAATTCTCAATGAACAAGTTCT
196 ACTTAATTCTAACAATCTCCACCTTGACACAAATTCTCAATGAACAAGTTCT
119896463 CTATGTCTATTTATAGGCTTGCAAAGCCATATTCTAGTAGGATTGAAACACCTTATCCTAATCAA
1 CTATGTCTATTTATAGGCTTGCAAAGCCATATTCTAGTAGGATTGAAACACCTTATCCTAATCAA
119896528 TATAAAATAGATGGAGTTTAATAAGGTTTAAAAACCTTATTCTAAAATAAAATAAAAGAAGTCTA
66 TATAAAATAGATGGAGTTTAATAAGGTTTAAAAACCTTATTCTAAAATAAAATAAAAGAAGTCTA
119896593 GTTCTATATGGATTTTACTTTTATTTTATTTTCCATCGTATTTTATTTAAATAAGAATTTGGGTC
131 GTTCTATATGGATTTTACTTTTATTTTATTTTCCATCGTATTTTATTTAAATAAGAATTTGGGTC
119896658 ACTTAATTCTAACAATCTCCACCTTGACACAAATTCTCAATGAACAAGTTCT
196 ACTTAATTCTAACAATCTCCACCTTGACACAAATTCTCAATGAACAAGTTCT
119896710 TCATCGCGAA
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
247 247 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (247 bp):
CTATGTCTATTTATAGGCTTGCAAAGCCATATTCTAGTAGGATTGAAACACCTTATCCTAATCAA
TATAAAATAGATGGAGTTTAATAAGGTTTAAAAACCTTATTCTAAAATAAAATAAAAGAAGTCTA
GTTCTATATGGATTTTACTTTTATTTTATTTTCCATCGTATTTTATTTAAATAAGAATTTGGGTC
ACTTAATTCTAACAATCTCCACCTTGACACAAATTCTCAATGAACAAGTTCT
Found at i:119902219 original size:9 final size:9
Alignment explanation
Indices: 119902185--119902312 Score: 172
Period size: 9 Copynumber: 14.4 Consensus size: 9
119902175 TGTGGTTAAA
119902185 AATTAACCG
1 AATTAACCG
119902194 AATTGAA-CG
1 AATT-AACCG
*
119902203 AGTTAACCG
1 AATTAACCG
119902212 AATTAACCG
1 AATTAACCG
119902221 AATTAACCG
1 AATTAACCG
119902230 -ATTAACCG
1 AATTAACCG
*
119902238 GATTAACCG
1 AATTAACCG
*
119902247 GATTAACCG
1 AATTAACCG
119902256 AATTAACCG
1 AATTAACCG
*
119902265 AATTAACTG
1 AATTAACCG
*
119902274 AATTAATCG
1 AATTAACCG
119902283 AATTAACCG
1 AATTAACCG
119902292 AATTAACCG
1 AATTAACCG
*
119902301 AA-TACCCG
1 AATTAACCG
119902309 AATT
1 AATT
119902313 GAATCACTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
8 17 0.16
9 88 0.82
10 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:119902362 original size:20 final size:20
Alignment explanation
Indices: 119902312--119902400 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 20
119902302 ATACCCGAAT
119902312 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
* * * *
119902330 -AAAACATTACATAAGTCTT
1 TGAATCACTACATAAGTCTA
119902349 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
** *
119902367 AAAAT-ATTACATAAGTCTA
1 TGAATCACTACATAAGTCTA
119902386 TGAATCACTACATAA
1 TGAATCACTACATAA
119902401 TTAAAAACAT
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
17 19 0.37
18 6 0.12
19 7 0.14
20 19 0.37
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (20 bp):
TGAATCACTACATAAGTCTA
Found at i:119902442 original size:72 final size:72
Alignment explanation
Indices: 119902311--119902460 Score: 266
Period size: 72 Copynumber: 2.1 Consensus size: 72
119902301 AATACCCGAA
*
119902311 TTGAATCACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTA
1 TTGAATCACTACATAATTAAAAACATTACA-AAGTCTTTGAATCACTACATAATTAAAAACATTA
119902376 CATAAGTC
65 CATAAGTC
119902384 TATGAATCACTACATAATTAAAAACATTAC-AAGTCTTTGAATCACTACATAATTAAAAACATTA
1 T-TGAATCACTACATAATTAAAAACATTACAAAGTCTTTGAATCACTACATAATTAAAAACATTA
119902448 CATAAGTC
65 CATAAGTC
119902456 TTGAA
1 TTGAA
119902461 ATTAACACAT
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
71 4 0.05
72 42 0.56
73 1 0.01
74 28 0.37
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (72 bp):
TTGAATCACTACATAATTAAAAACATTACAAAGTCTTTGAATCACTACATAATTAAAAACATTAC
ATAAGTC
Found at i:119902474 original size:37 final size:37
Alignment explanation
Indices: 119902311--119902457 Score: 262
Period size: 37 Copynumber: 4.0 Consensus size: 37
119902301 AATACCCGAA
119902311 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
119902348 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
119902385 ATGAATCACTACATAATTAAAAACATTAC--AAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
119902420 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
119902457 T
1 T
119902458 GAAATTAACA
Statistics
Matches: 104, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
35 34 0.33
37 70 0.67
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:119904905 original size:21 final size:21
Alignment explanation
Indices: 119904874--119904932 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
119904864 AACAAGAAAA
119904874 AATTATATAATAAATTAAAATAC
1 AATT-TATAAT-AATTAAAATAC
119904897 -ATTTATAAT-ATTAAAATAC
1 AATTTATAATAATTAAAATAC
119904916 ATATTTATAAT-ATTAAA
1 A-ATTTATAATAATTAAA
119904933 CAATTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATAATAATTAAAATAC
Found at i:119904909 original size:19 final size:20
Alignment explanation
Indices: 119904883--119904932 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
119904873 AAATTATATA
119904883 ATAA-ATTAAAATAC-ATTT
1 ATAATATTAAAATACAATTT
119904901 ATAATATTAAAATACATATTT
1 ATAATATTAAAATACA-ATTT
119904922 ATAATATTAAA
1 ATAATATTAAA
119904933 CAATTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
21 15 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATTAAAATACAATTT
Found at i:119905572 original size:14 final size:14
Alignment explanation
Indices: 119905553--119905582 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
119905543 TTAGTTTTAG
119905553 TAGATTTTTACTTT
1 TAGATTTTTACTTT
*
119905567 TAGATTTTTATTTT
1 TAGATTTTTACTTT
119905581 TA
1 TA
119905583 TTTATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (14 bp):
TAGATTTTTACTTT
Found at i:119910543 original size:41 final size:41
Alignment explanation
Indices: 119910486--119910569 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
119910476 AATCTAATAC
119910486 TTTTTTTTAATAAATGAAATCTAATACTTTCTTGTGTTCGA
1 TTTTTTTTAATAAATGAAATCTAATACTTTCTTGTGTTCGA
119910527 TTTTTTTTAATAAATGAAATCTAATACTTTCTTGTGTTCGA
1 TTTTTTTTAATAAATGAAATCTAATACTTTCTTGTGTTCGA
119910568 TT
1 TT
119910570 ATTTCTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (41 bp):
TTTTTTTTAATAAATGAAATCTAATACTTTCTTGTGTTCGA
Found at i:119911734 original size:58 final size:58
Alignment explanation
Indices: 119911583--119911734 Score: 250
Period size: 58 Copynumber: 2.6 Consensus size: 58
119911573 CACTGTTGCA
* *
119911583 ATTATGGATTAACTTTTAATTTTTTTCTCGGTTTAATAGAAGTATTTTAATTGGTTAT
1 ATTATGGATTAACTTTTAATTTTTTTCTCGGTTTAGTAGAAGTATTTTAATTGGTTAC
119911641 ATTATGGATTAACTTTTAATTTTTTTCTCGGTTTAGTAGAAGTATTTTAATTGGTTAC
1 ATTATGGATTAACTTTTAATTTTTTTCTCGGTTTAGTAGAAGTATTTTAATTGGTTAC
* * * *
119911699 ATTATTGATTGACTTTTATTTTTTTTCTCGATTTAG
1 ATTATGGATTAACTTTTAATTTTTTTCTCGGTTTAG
119911735 ATAACATGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 88 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.55
Consensus pattern (58 bp):
ATTATGGATTAACTTTTAATTTTTTTCTCGGTTTAGTAGAAGTATTTTAATTGGTTAC
Found at i:119912471 original size:18 final size:19
Alignment explanation
Indices: 119912431--119912469 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
119912421 AACCCTTTTC
119912431 AATTTAAAAAAATCATAAA
1 AATTTAAAAAAATCATAAA
119912450 AATTATAAAAAAATC-TAAA
1 AATT-TAAAAAAATCATAAA
119912469 A
1 A
119912470 TTGGGTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
AATTTAAAAAAATCATAAA
Found at i:119912680 original size:25 final size:26
Alignment explanation
Indices: 119912629--119912680 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
119912619 TTATTATTAT
*
119912629 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATATATAACAATAA
*
119912655 TTTTATTAAAATTTA-ATAACAATAA
1 TTTTATTAAAATATATATAACAATAA
119912680 T
1 T
119912681 CATCTACGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTATTAAAATATATATAACAATAA
Found at i:119918753 original size:25 final size:25
Alignment explanation
Indices: 119918668--119918828 Score: 120
Period size: 25 Copynumber: 6.7 Consensus size: 25
119918658 TTATTATGCA
* *
119918668 CTAATAAACAGAGAGCACTGAAGTG
1 CTAATAATCAGAGAGCACTGACGTG
** *
119918693 CT-AT-A-CAGAGAGCACAAATGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
119918715 C---TAATCAGAGAGCATTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
119918737 CTAA-ATATCAGAAAGCACTGGCGTG
1 CTAATA-ATCAGAGAGCACTGACGTG
* *
119918762 CTAATAATCAGAGAGCACTGGCATG
1 CTAATAATCAGAGAGCACTGACGTG
* * * *
119918787 CTAATATTCAAAGAACACTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
119918812 CTAATATTCAGATAGCA
1 CTAATAATCAGAGAGCA
119918829 TGCTGAGGTC
Statistics
Matches: 110, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 29 0.26
23 1 0.01
24 3 0.03
25 74 0.67
26 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:119918778 original size:50 final size:50
Alignment explanation
Indices: 119918716--119918829 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 50
119918706 ACAAATGTGC
* *
119918716 TAATCAGAGAGCATTGACGTGCTAA-ATATCAGAA-AGCACTGGCGTGCTAA
1 TAATCAGAGAGCATTGACATGCTAATAT-TCA-AAGAACACTGGCGTGCTAA
* *
119918766 TAATCAGAGAGCACTGGCATGCTAATATTCAAAGAACACTGGCGTGCTAA
1 TAATCAGAGAGCATTGACATGCTAATATTCAAAGAACACTGGCGTGCTAA
* *
119918816 TATTCAGATAGCAT
1 TAATCAGAGAGCAT
119918830 GCTGAGGTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 2 0.04
50 51 0.93
51 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (50 bp):
TAATCAGAGAGCATTGACATGCTAATATTCAAAGAACACTGGCGTGCTAA
Found at i:119920246 original size:2 final size:2
Alignment explanation
Indices: 119920239--119920267 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
119920229 GAAACTAGTC
119920239 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
119920268 CATGTCATGA
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:119925180 original size:39 final size:35
Alignment explanation
Indices: 119925122--119925221 Score: 92
Period size: 39 Copynumber: 2.6 Consensus size: 35
119925112 ACACACTACT
*
119925122 ATATAATAATAATAATAAATATAGAAATACAAAAAGCAA
1 ATATAATAAAAAT-ATAAATATAGAAATA-AAAAA-C-A
* *
119925161 ATATAATAAAAATATTAAATTAAAGTAATAAAAAACA
1 ATATAATAAAAATA-TAAA-TATAGAAATAAAAAACA
*
119925198 ATACTATATATAAATATAAATATA
1 ATA-TA-ATAAAAATATAAATATA
119925222 TATATACATA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
37 7 0.13
38 8 0.15
39 29 0.56
40 8 0.15
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (35 bp):
ATATAATAAAAATATAAATATAGAAATAAAAAACA
Found at i:119925225 original size:18 final size:18
Alignment explanation
Indices: 119925188--119925239 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
119925178 AATTAAAGTA
119925188 ATAAA-AAACAATACTATAT
1 ATAAATAAA-AATA-TATAT
*
119925207 ATAAATATAAATATATAT
1 ATAAATAAAAATATATAT
*
119925225 ATACATAAAAATATA
1 ATAAATAAAAATATA
119925240 CAGTAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 18 0.62
19 9 0.31
20 2 0.07
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAAAATATATAT
Found at i:119925475 original size:3 final size:3
Alignment explanation
Indices: 119925462--119925547 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
119925452 GAGGGCATAT
*
119925462 ATA AT- ATA ATA ATA AT- ATAA AGA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
119925506 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
119925548 AACGAAGCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
2 9 0.14
3 47 0.71
4 8 0.12
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:119925488 original size:18 final size:19
Alignment explanation
Indices: 119925467--119925547 Score: 76
Period size: 18 Copynumber: 4.2 Consensus size: 19
119925457 CATATATAAT
*
119925467 ATAATAATAAT-ATAAAGA
1 ATAATAATAATAATAAATA
* *
119925485 ATAATATATACATGAGAAATA
1 ATAATA-ATA-ATAATAAATA
119925506 ATAATAATAAT-ATAAATA
1 ATAATAATAATAATAAATA
* *
119925524 ATAGTAAAAATAATAAAATA
1 ATAATAATAATAAT-AAATA
119925544 ATAA
1 ATAA
119925548 AACGAAGCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 21 0.40
19 7 0.13
20 13 0.25
21 11 0.21
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAATAATAATAATAAATA
Found at i:119925523 original size:12 final size:12
Alignment explanation
Indices: 119925462--119925544 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
119925452 GAGGGCATAT
119925462 ATAATAT-AATA
1 ATAATATAAATA
*
119925473 ATAATATAAAGA
1 ATAATATAAATA
119925485 ATAATATATACATGA
1 ATAATATA-A-AT-A
119925500 GA-AATA-ATAATA
1 -ATAATATA-AATA
119925512 ATAATATAAATA
1 ATAATATAAATA
* *
119925524 ATAGTAAAAATA
1 ATAATATAAATA
*
119925536 ATAAAATAA
1 ATAATATAA
119925545 TAAAACGAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
11 8 0.14
12 36 0.62
13 4 0.07
14 4 0.07
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:119925896 original size:26 final size:25
Alignment explanation
Indices: 119925847--119925896 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
119925837 AAAAACTAGC
* * *
119925847 CTTTCCAAGAAAGAAAAATAACCTT
1 CTTTCCAAAAAAAAAAAAAAACCTT
119925872 CTTTCCAAAAAACAAAAAAAAACCT
1 CTTTCCAAAAAA-AAAAAAAAACCT
119925897 CCAAAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.54, C:0.22, G:0.04, T:0.20
Consensus pattern (25 bp):
CTTTCCAAAAAAAAAAAAAAACCTT
Found at i:119925902 original size:20 final size:20
Alignment explanation
Indices: 119925875--119925918 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 20
119925865 TAACCTTCTT
119925875 TCCAAAAAACAAAAAAAAACC
1 TCCAAAAAAC-AAAAAAAACC
119925896 TCCAAAAAACAAAAAAAACC
1 TCCAAAAAACAAAAAAAACC
119925916 TCC
1 TCC
119925919 TCCAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.66, C:0.27, G:0.00, T:0.07
Consensus pattern (20 bp):
TCCAAAAAACAAAAAAAACC
Found at i:119925920 original size:23 final size:23
Alignment explanation
Indices: 119925875--119925958 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 23
119925865 TAACCTTCTT
*
119925875 TCCAAAAAACAAAAAAAA--ACC
1 TCCAAAAAACAAAAAAAACCTCC
119925896 TCCAAAAAACAAAAAAAACCTCC
1 TCCAAAAAACAAAAAAAACCTCC
* *
119925919 TCC--AAAACAAAGAACAATCCTTC
1 TCCAAAAAACAAA-AA-AAACCTCC
*
119925942 TCCAAAAAACTAAAAAA
1 TCCAAAAAACAAAAAAA
119925959 CCCCATTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
21 26 0.49
22 2 0.04
23 16 0.30
24 2 0.04
25 7 0.13
ACGTcount: A:0.62, C:0.26, G:0.01, T:0.11
Consensus pattern (23 bp):
TCCAAAAAACAAAAAAAACCTCC
Found at i:119925925 original size:21 final size:21
Alignment explanation
Indices: 119925880--119925948 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
119925870 TTCTTTCCAA
**
119925880 AAAACAAAAAAAAACCTCC-AA
1 AAAAC-AAAAAAAACCTCCTCC
119925901 AAAACAAAAAAAACCTCCTCC
1 AAAACAAAAAAAACCTCCTCC
* *
119925922 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AAACCTCCTCC
119925945 AAAA
1 AAAA
119925949 AACTAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 2 0.05
23 13 0.32
ACGTcount: A:0.61, C:0.28, G:0.01, T:0.10
Consensus pattern (21 bp):
AAAACAAAAAAAACCTCCTCC
Found at i:119929539 original size:43 final size:43
Alignment explanation
Indices: 119929492--119929582 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
119929482 ATGTGTCTCA
* *
119929492 GCCGTATGAAGGACACGGTCATAGGACACGAGCGTGTACCTTG
1 GCCGTACGAAGGACACGATCATAGGACACGAGCGTGTACCTTG
* * *
119929535 GCCGTACGAAGGACATGATCATAGGACATGAGCGTGTGCCTTG
1 GCCGTACGAAGGACACGATCATAGGACACGAGCGTGTACCTTG
119929578 GCCGT
1 GCCGT
119929583 GTAGCTTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (43 bp):
GCCGTACGAAGGACACGATCATAGGACACGAGCGTGTACCTTG
Found at i:119930627 original size:48 final size:48
Alignment explanation
Indices: 119930559--119930871 Score: 212
Period size: 48 Copynumber: 6.7 Consensus size: 48
119930549 CAGTGCAGGT
*
119930559 GATATGT-ACGCCAGTGTAAGACATGTCTGGGACATGCATCAGTCTCGA
1 GATATGTGA-GCCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGA
* * * *
119930607 GATATGTGTGCTAGTATAAGACATGTTTGGGACATGCATC-GAC-C-A
1 GATATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGA
* * * * *
119930652 CAT-TGCGAAAGCCAGTGTAAGACATGTCTGGGACATACAT-TGACTTTGA
1 GATATGTG--AGCCAGTGTAAGACATGTCTGGGACATGCATCAGAC-TCGA
* *
119930701 G--ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCA-ACCTTGA
1 GATATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGA-CTCGA
* * * *
119930747 GATATGTGTGCTAGTGTAATACATGTCTAGGACATGCATCAG-C-C-A
1 GATATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGA
* * * * *
119930792 CAT-CGTGAAAACTAGTGTAAGACCATGTCTGGGACATGGCATC-GACT--T
1 GATATGTG--AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGACTCGA
* *
119930840 GATATGT--GTCAGTGTAAGACCTGTCTGGGACA
1 GATATGTGAGCCAGTGTAAGACATGTCTGGGACA
119930872 CAGCATCGAC
Statistics
Matches: 209, Mismatches: 36, Indels: 44
0.72 0.12 0.15
Matches are distributed among these distances:
44 18 0.09
45 15 0.07
46 76 0.36
47 18 0.09
48 79 0.38
49 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GATATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGA
Found at i:119930684 original size:46 final size:46
Alignment explanation
Indices: 119930568--119930837 Score: 178
Period size: 46 Copynumber: 5.7 Consensus size: 46
119930558 TGATATGTAC
* * *
119930568 GCCAGTGTAAGACATGTCTGGGACATGCATCAGTCTCGAGATATGTG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GAC-C-ACAT-TGTGAAA
* * * *
119930616 GCTAGTATAAGACATGTTTGGGACATGCATCGACCACATTGCGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTGTGAAA
* * * *
119930662 GCCAGTGTAAGACATGTCTGGGACATACATTG---ACTTTGAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATT--G-TGAAA
* * *
119930708 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTTGAGATATGTG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACC---ACAT-TGTGAAA
* * * *
119930756 GCTAGTGTAATACATGTCTAGGACATGCATC-AGCCACATCGTGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGA-CCACATTGTGAAA
* *
119930802 ACTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
119930838 TTGATATGTG
Statistics
Matches: 174, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
43 4 0.02
44 6 0.03
45 7 0.04
46 70 0.40
47 16 0.09
48 64 0.37
49 1 0.01
50 2 0.01
51 1 0.01
52 2 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTGTGAAA
Found at i:119930878 original size:140 final size:139
Alignment explanation
Indices: 119930568--119930871 Score: 398
Period size: 140 Copynumber: 2.2 Consensus size: 139
119930558 TGATATGTAC
**
119930568 GCCAGTGTAAGACATGTCTGGGACATGCATCAGTCTCGAGATATGTGTGCTAGTATAAGACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATGTGTGCTAGTATAAGACATGT
* * * * *
119930633 TTGGGACATGCATCGACCACATTGCGAAAGCCAGTGTAAGACATGTCTGGGACATACATTGACTT
66 CTAGGACATGCATCGACCACATCGCGAAAACCAGTGTAAGACATGTCTGGGACATACATCGACTT
119930698 TGAGATGAGA
131 TGAGAT-AGA
* * *
119930708 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTTGAGATATGTGTGCTAGTGTAATACATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATGTGTGCTAGTATAAGACATGT
* * *
119930773 CTAGGACATGCATC-AGCCACATCGTGAAAACTAGTGTAAGACCATGTCTGGGACATGGCATCGA
66 CTAGGACATGCATCGA-CCACATCGCGAAAACCAGTGTAAGA-CATGTCTGGGACAT-ACATCGA
* *
119930837 C-TTGATAT-GT
128 CTTTGAGATAGA
* *
119930847 GTCAGTGTAAGACCTGTCTGGGACA
1 GCCAGTGTAAGACATGTCTGGGACA
119930872 CAGCATCGAC
Statistics
Matches: 144, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
139 25 0.17
140 93 0.65
141 20 0.14
142 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (139 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATGTGTGCTAGTATAAGACATGT
CTAGGACATGCATCGACCACATCGCGAAAACCAGTGTAAGACATGTCTGGGACATACATCGACTT
TGAGATAGA
Found at i:119948734 original size:17 final size:19
Alignment explanation
Indices: 119948697--119948735 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
119948687 GGAATATTTA
*
119948697 AAAAAAAAAGGTGACATAG
1 AAAAAAAAAGGTGACAAAG
119948716 AAAAAAAAA-GTGA-AAAG
1 AAAAAAAAAGGTGACAAAG
119948733 AAA
1 AAA
119948736 CAGTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAGGTGACAAAG
Found at i:119950572 original size:30 final size:31
Alignment explanation
Indices: 119950514--119950576 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
119950504 CTTAACAAGT
119950514 AAATGCTTCTAAAATAATAATAAAAATTAAC
1 AAATGCTTCTAAAATAATAATAAAAATTAAC
*
119950545 AAATGCCTT-TAAAATAATAA-GAAAATTAAC
1 AAATG-CTTCTAAAATAATAATAAAAATTAAC
119950575 AA
1 AA
119950577 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.37
31 16 0.53
32 3 0.10
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (31 bp):
AAATGCTTCTAAAATAATAATAAAAATTAAC
Found at i:119956177 original size:11 final size:11
Alignment explanation
Indices: 119956161--119956190 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
119956151 GGAAAGAAAT
119956161 ATATAATAAGA
1 ATATAATAAGA
119956172 ATATAATAAGA
1 ATATAATAAGA
*
119956183 ATCTAATA
1 ATATAATA
119956191 GCTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATAATAAGA
Found at i:119970468 original size:15 final size:16
Alignment explanation
Indices: 119970448--119970477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
119970438 GCTATGATAT
119970448 ATGAAA-TTTTTAAGA
1 ATGAAAGTTTTTAAGA
119970463 ATGAAAGTTTTTAAG
1 ATGAAAGTTTTTAAG
119970478 TTATGGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (16 bp):
ATGAAAGTTTTTAAGA
Found at i:119973483 original size:3 final size:3
Alignment explanation
Indices: 119973475--119973517 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
119973465 ATAATATATA
119973475 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
119973518 ACAGAACTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:119975663 original size:26 final size:26
Alignment explanation
Indices: 119975619--119975668 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
119975609 TTAGCCTCGC
*
119975619 CACGTGTACGGGTGAATCACGCTTGT
1 CACGTGTACGAGTGAATCACGCTTGT
*
119975645 CACGTGTACGAGTGGATCACGCTT
1 CACGTGTACGAGTGAATCACGCTT
119975669 TTCTACATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (26 bp):
CACGTGTACGAGTGAATCACGCTTGT
Found at i:119977959 original size:807 final size:807
Alignment explanation
Indices: 119976406--119978024 Score: 2990
Period size: 807 Copynumber: 2.0 Consensus size: 807
119976396 GCCAACCAGT
**
119976406 GTTCTAATTTTTTATTAAATTAGGGAAATACATTAGGGTGTGATGTAGACCTACCGACGAATTTG
1 GTTCTAATTTTCGATTAAATTAGGGAAATACATTAGGGTGTGATGTAGACCTACCGACGAATTTG
* *
119976471 GTCTTCAAATAGAGTGGTCCGCACCAAGCAAGGATATGTGTTCATTTAAGCGAAGCGTTACAACA
66 GTCTTCAAACAGAGTGGTCCGCACCAAGCAAGGATATGTGTTCATTTAAGCGAAGCATTACAACA
* *
119976536 GATAATGGTTCAACCCAACTCGAAAGGCTTCACACTAGTAGTCCCCTTTGTTGTAGAAGATGTTA
131 GATAATGGTTCAACCCAACTCGAAAGGCTTCACACTAGCAGTCCCATTTGTTGTAGAAGATGTTA
119976601 TAACCGCAAGGAATGTGCTTCGATATTGTTTGGAATGCTTTAACCCCGATAAGTATAGGCGAGGT
196 TAACCGCAAGGAATGTGCTTCGATATTGTTTGGAATGCTTTAACCCCGATAAGTATAGGCGAGGT
119976666 GACAACAGATAAGTGGCTGAAGCAGTTGGTGCAGACTTTGAAAAACAAACATGGCCCCATGTGGC
261 GACAACAGATAAGTGGCTGAAGCAGTTGGTGCAGACTTTGAAAAACAAACATGGCCCCATGTGGC
119976731 CAAAAATGATTTGAAACTAATTTCAATAATACGCAATGAGGAACCTAAGAACTTTTTTTACTGTT
326 CAAAAATGATTTGAAACTAATTTCAATAATACGCAATGAGGAACCTAAGAACTTTTTTTACTGTT
* *
119976796 TCTACAGGATTAGACTTCGCCGTTAGATCTCGGTTGTCTCATTGCACAAAGAAAGTGGTACAAAT
391 TCTACAGGATTAGACTTCACCGTTAGATCTCGATTGTCTCATTGCACAAAGAAAGTGGTACAAAT
* * *
119976861 ATTAATTTGATAATTGCTCTTACTGATACTAGAATTATCGGTGGTGTAGGCACAGCTCGCAATTT
456 ATTAATTTGATAATTGCTCCTACTGATACTAGAATTATCGGTGGTCTAGGCACAGCTCGCAATTC
*
119976926 TAGAAGCGGCTCGAAGGAAACTACCATTTTATCCTAAGAAATTAAAGATGTTATTGACCTGCGAG
521 TAGAAGCGACTCGAAGGAAACTACCATTTTATCCTAAGAAATTAAAGATGTTATTGACCTGCGAG
119976991 CTTCTCTGAAGGACATGCGTAAGAAGCACAAAACTAATGTAGAGCCTGTAAAAGTGGTTATTAGC
586 CTTCTCTGAAGGACATGCGTAAGAAGCACAAAACTAATGTAGAGCCTGTAAAAGTGGTTATTAGC
119977056 AGCGAATAGGAGGCAGATAGTGGAAAGCTAGAGTATCATCATAAAAGGAGGGCAAATCATGCTGG
651 AGCGAATAGGAGGCAGATAGTGGAAAGCTAGAGTATCATCATAAAAGGAGGGCAAATCATGCTGG
*
119977121 GCCTTCTACTGTGATAGCAGCTACTCCTACTTCTCCCTCGGTGAGCTCACCATCTATGGCTCGTA
716 GCCTTCTACTGTGATAGCAGCTACTCCTACTTCTCCCCCGGTGAGCTCACCATCTATGGCTCGTA
*
119977186 AGAGCTCTTCGATTGCTACTATTAGTA
781 AGAGCTCTTCGATTGCTACTAGTAGTA
*
119977213 GTTCTAATTTTCGATTAAATT-GGGAAAATACATTAGGGTGTGATGTAGACCTGCCGACGAATTT
1 GTTCTAATTTTCGATTAAATTAGGG-AAATACATTAGGGTGTGATGTAGACCTACCGACGAATTT
* * *
119977277 GGTCTTCAAACAGAGTGGTTCGCACCAAGTAGGGATATGTGTTCATTTAAGCGAAGCATTACAAC
65 GGTCTTCAAACAGAGTGGTCCGCACCAAGCAAGGATATGTGTTCATTTAAGCGAAGCATTACAAC
119977342 AGATAATGGTTCAACCCAACTCGAAAGGCTTCACACTAGCAGTCCCATTTGTTGTAGAAGATGTT
130 AGATAATGGTTCAACCCAACTCGAAAGGCTTCACACTAGCAGTCCCATTTGTTGTAGAAGATGTT
*
119977407 ATAACCGCAAGGAATGTGCTTCGATATTGTTTGGAATGCTTTAACCCCGATGAGTATAGGCGAGG
195 ATAACCGCAAGGAATGTGCTTCGATATTGTTTGGAATGCTTTAACCCCGATAAGTATAGGCGAGG
119977472 TGACAACAGATAAGTGGCTGAAGCAGTTGGTGCAGACTTTGAAAAACAAACATGGCCCCATGTGG
260 TGACAACAGATAAGTGGCTGAAGCAGTTGGTGCAGACTTTGAAAAACAAACATGGCCCCATGTGG
*
119977537 CCAAAAATGATTTGAGACTAATTTCAATAATACGCAATGAGGAACCTAAGAACTTTTTTTACTGT
325 CCAAAAATGATTTGAAACTAATTTCAATAATACGCAATGAGGAACCTAAGAACTTTTTTTACTGT
119977602 TTCTACAGGATTAGACTTCACCGTTAGATCTCGATTGTCTCATTGCACAAAGAAAGTGGTACAAA
390 TTCTACAGGATTAGACTTCACCGTTAGATCTCGATTGTCTCATTGCACAAAGAAAGTGGTACAAA
119977667 TATTAATTTGATAATTGCTCCTACTGATACTAGAATTATCGGTGGTCTAGGCACAGCTCGCAATT
455 TATTAATTTGATAATTGCTCCTACTGATACTAGAATTATCGGTGGTCTAGGCACAGCTCGCAATT
*
119977732 CTAGAAGCGACTTGAAGGAAACTACCATTTTATCCTAAGAAATTAAAGATGTTATTGACCTGCGA
520 CTAGAAGCGACTCGAAGGAAACTACCATTTTATCCTAAGAAATTAAAGATGTTATTGACCTGCGA
*
119977797 GCTTCTCT-AAGGGACATGCGTAAGAAGCACAAAACTAATGTAGAGCTTGTAAAAGTGGTTATTA
585 GCTTCTCTGAA-GGACATGCGTAAGAAGCACAAAACTAATGTAGAGCCTGTAAAAGTGGTTATTA
*
119977861 GCAGCGAATAGGAGGCAGATAGTGGAAAGCTAGAGTATCATTATAAAAGGAGGGCAAATCATGCT
649 GCAGCGAATAGGAGGCAGATAGTGGAAAGCTAGAGTATCATCATAAAAGGAGGGCAAATCATGCT
119977926 GGGCCTTCTACTGTGATAGCAGCTACTCCTACTTCTCCCCCGGTGAGCTCACCATCTATGGCTCG
714 GGGCCTTCTACTGTGATAGCAGCTACTCCTACTTCTCCCCCGGTGAGCTCACCATCTATGGCTCG
*
119977991 TAAGAGCTCTTCGATTGCTACTCGTAGTA
779 TAAGAGCTCTTCGATTGCTACTAGTAGTA
119978020 GTTCT
1 GTTCT
119978025 CCTCTTCATA
Statistics
Matches: 786, Mismatches: 24, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
806 5 0.01
807 781 0.99
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (807 bp):
GTTCTAATTTTCGATTAAATTAGGGAAATACATTAGGGTGTGATGTAGACCTACCGACGAATTTG
GTCTTCAAACAGAGTGGTCCGCACCAAGCAAGGATATGTGTTCATTTAAGCGAAGCATTACAACA
GATAATGGTTCAACCCAACTCGAAAGGCTTCACACTAGCAGTCCCATTTGTTGTAGAAGATGTTA
TAACCGCAAGGAATGTGCTTCGATATTGTTTGGAATGCTTTAACCCCGATAAGTATAGGCGAGGT
GACAACAGATAAGTGGCTGAAGCAGTTGGTGCAGACTTTGAAAAACAAACATGGCCCCATGTGGC
CAAAAATGATTTGAAACTAATTTCAATAATACGCAATGAGGAACCTAAGAACTTTTTTTACTGTT
TCTACAGGATTAGACTTCACCGTTAGATCTCGATTGTCTCATTGCACAAAGAAAGTGGTACAAAT
ATTAATTTGATAATTGCTCCTACTGATACTAGAATTATCGGTGGTCTAGGCACAGCTCGCAATTC
TAGAAGCGACTCGAAGGAAACTACCATTTTATCCTAAGAAATTAAAGATGTTATTGACCTGCGAG
CTTCTCTGAAGGACATGCGTAAGAAGCACAAAACTAATGTAGAGCCTGTAAAAGTGGTTATTAGC
AGCGAATAGGAGGCAGATAGTGGAAAGCTAGAGTATCATCATAAAAGGAGGGCAAATCATGCTGG
GCCTTCTACTGTGATAGCAGCTACTCCTACTTCTCCCCCGGTGAGCTCACCATCTATGGCTCGTA
AGAGCTCTTCGATTGCTACTAGTAGTA
Found at i:119979215 original size:11 final size:12
Alignment explanation
Indices: 119979188--119979212 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
119979178 AAAATTGAAC
119979188 TTAAACAAATTT
1 TTAAACAAATTT
119979200 TTAAACAAATTT
1 TTAAACAAATTT
119979212 T
1 T
119979213 AAAAAGTAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAACAAATTT
Found at i:119979601 original size:157 final size:157
Alignment explanation
Indices: 119979315--119979609 Score: 412
Period size: 157 Copynumber: 1.9 Consensus size: 157
119979305 AAACATTCTA
* * * *
119979315 AGTTGTGAATTTTAATTAGCAAACTCAAAGGAACTTAAGCTACGATCTCAAATCAATTAAGCCTT
1 AGTTGTAAATGTTAATCAGCAAAATCAAAGGAACTTAAGCTACGATCTCAAATCAATTAAGCCTT
* * * **
119979380 AAATACCACCCAGGAAGGTAGCCTTGCTAGCTTTGTTGGATCTATGAGCTTAATTATAGAAGCAC
66 AAATACCACCCAGGAAGGTAACCTTGCTAGCTGTGTTGAATCTACAAGCTTAATTATAGAAGCAC
119979445 TTATAATGCCAGCTGAGAGTGTAGGTG
131 TTATAATGCCAGCTGAGAGTGTAGGTG
* ** * *
119979472 AGTTGTAAATGTTAATCAGCAAAATCAAAGGAATTTAATTTGCGATCTTAAATCAATTAAGCCTT
1 AGTTGTAAATGTTAATCAGCAAAATCAAAGGAACTTAAGCTACGATCTCAAATCAATTAAGCCTT
* * * *
119979537 AAATACCACCCAGGAGGGTAACCTTGCTAGCTGTGTTGAATCTGCAAGCTTAATT-TTGTGAGCA
66 AAATACCACCCAGGAAGGTAACCTTGCTAGCTGTGTTGAATCTACAAGCTTAATTATAG-AAGCA
119979601 CTTATAATG
130 CTTATAATG
119979610 TCAGATGGGA
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
156 2 0.02
157 117 0.98
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (157 bp):
AGTTGTAAATGTTAATCAGCAAAATCAAAGGAACTTAAGCTACGATCTCAAATCAATTAAGCCTT
AAATACCACCCAGGAAGGTAACCTTGCTAGCTGTGTTGAATCTACAAGCTTAATTATAGAAGCAC
TTATAATGCCAGCTGAGAGTGTAGGTG
Found at i:119981229 original size:54 final size:54
Alignment explanation
Indices: 119981142--119981248 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
119981132 AAAAAAGCGT
* * * *
119981142 CTGCACATGTGTTGTCACTTCTGGTGAGCTACTTTATCTGAACTTTGTTAAATA
1 CTGCACATGTGTTGTCACTCCTAGCGAGATACTTTATCTGAACTTTGTTAAATA
119981196 CTGCACATGTGTTGTCACTCCTAGCGAGATACTTTATCTGAACTTTGTTAAAT
1 CTGCACATGTGTTGTCACTCCTAGCGAGATACTTTATCTGAACTTTGTTAAAT
119981249 CTTACAAGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (54 bp):
CTGCACATGTGTTGTCACTCCTAGCGAGATACTTTATCTGAACTTTGTTAAATA
Found at i:119988235 original size:3 final size:3
Alignment explanation
Indices: 119988227--119988254 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
119988217 TGAACCTAAG
119988227 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
119988255 AGTTTTTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:119992553 original size:4 final size:4
Alignment explanation
Indices: 119992544--119992569 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
119992534 TAGATTACAT
119992544 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
119992570 GAAGAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:119999559 original size:16 final size:17
Alignment explanation
Indices: 119999528--119999562 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
119999518 ATAATGATAA
*
119999528 TTTATCTAAGTAATTAT
1 TTTATCTAACTAATTAT
119999545 TTTATCTAACT-ATTAT
1 TTTATCTAACTAATTAT
119999561 TT
1 TT
119999563 CTCTCCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATCTAACTAATTAT
Found at i:120003277 original size:52 final size:52
Alignment explanation
Indices: 120003215--120003370 Score: 165
Period size: 52 Copynumber: 3.0 Consensus size: 52
120003205 ATATATCATA
* * * *
120003215 CCGATGCCATATCCCGGA-TATGGTCTTACATGGGAGCACTTATCACTT-TTCG
1 CCGATGCCATAGCCC-AACTATGGTCTTA-ATCGAAGCACTTATCACTTGTTCG
* * **
120003267 CCGATGCCATAGCCCAACTATGGTCTTATTCGAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAACTATGGTCTTAATCGAAGCACTTATCACTTGTTCG
*
120003319 CCGATGCCATAGCCCAACTATGGTCTT-ATACGGATATCACTTATCACTTGTT
1 CCGATGCCATAGCCCAACTATGGTCTTAAT-C-GA-AGCACTTATCACTTGTT
120003371 GCCATGGTCC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
51 17 0.19
52 54 0.60
53 2 0.02
54 17 0.19
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (52 bp):
CCGATGCCATAGCCCAACTATGGTCTTAATCGAAGCACTTATCACTTGTTCG
Found at i:120003364 original size:54 final size:52
Alignment explanation
Indices: 120003251--120003370 Score: 188
Period size: 52 Copynumber: 2.3 Consensus size: 52
120003241 TACATGGGAG
*
120003251 CACTTATCACTT-TTCGCCGATGCCATAGCCCAACTATGGTCTTATTCGAAT
1 CACTTATCACTTGTTCGCCGATGCCATAGCCCAACTATGGTCTTATACGAAT
**
120003302 CACTTATCACTTGTTTTCCGATGCCATAGCCCAACTATGGTCTTATACGGATAT
1 CACTTATCACTTGTTCGCCGATGCCATAGCCCAACTATGGTCTTATAC-GA-AT
120003356 CACTTATCACTTGTT
1 CACTTATCACTTGTT
120003371 GCCATGGTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 12 0.19
52 32 0.51
53 2 0.03
54 17 0.27
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (52 bp):
CACTTATCACTTGTTCGCCGATGCCATAGCCCAACTATGGTCTTATACGAAT
Found at i:120005861 original size:25 final size:25
Alignment explanation
Indices: 120005833--120005896 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
120005823 CGAGCAATAC
**
120005833 AACGGGAAGCTCATGTGAGCCGTAT
1 AACGGGAAGCTCATCCGAGCCGTAT
* *
120005858 AACGGGAAGCTTATCCGAGCTGTAT
1 AACGGGAAGCTCATCCGAGCCGTAT
*
120005883 AACGGGAAACTCAT
1 AACGGGAAGCTCAT
120005897 AAGAGCCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATCCGAGCCGTAT
Found at i:120008109 original size:2 final size:2
Alignment explanation
Indices: 120008102--120008132 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
120008092 TATCAGTAAG
120008102 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
120008133 GACTTAAATA
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:120011355 original size:49 final size:49
Alignment explanation
Indices: 120011297--120011484 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
120011287 TAGCCGAAGC
* *
120011297 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
120011346 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
120011397 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
120011446 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
120011485 CGTGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:120011416 original size:100 final size:100
Alignment explanation
Indices: 120011302--120011489 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
120011292 GAAGCTATCT
* *
120011302 GGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
120011367 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
120011402 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
120011467 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
120011490 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:120011869 original size:20 final size:20
Alignment explanation
Indices: 120011836--120011892 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
120011826 TATCATCATT
* *
120011836 TTCTTGCATTTCATATAACA
1 TTCTTTCATGTCATATAACA
**
120011856 TTCTTTCATGTCATATTTCCA
1 TTCTTTCATGTCATA-TAACA
*
120011877 CTCTTTCATGTCATAT
1 TTCTTTCATGTCATAT
120011893 TTCCACATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCTTTCATGTCATATAACA
Found at i:120011883 original size:21 final size:21
Alignment explanation
Indices: 120011857--120011898 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
120011847 CATATAACAT
120011857 TCTTTCATGTCATATTTCCAC
1 TCTTTCATGTCATATTTCCAC
120011878 TCTTTCATGTCATATTTCCAC
1 TCTTTCATGTCATATTTCCAC
120011899 ATCATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.05, T:0.48
Consensus pattern (21 bp):
TCTTTCATGTCATATTTCCAC
Found at i:120014301 original size:24 final size:24
Alignment explanation
Indices: 120014269--120014316 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
120014259 TTCTATCCAT
120014269 AGTAAAAAGATTCATAAATAATTA
1 AGTAAAAAGATTCATAAATAATTA
120014293 AGTAAAAAGATTCATAAATAATTA
1 AGTAAAAAGATTCATAAATAATTA
120014317 CTTCTGTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (24 bp):
AGTAAAAAGATTCATAAATAATTA
Found at i:120025285 original size:55 final size:54
Alignment explanation
Indices: 120025171--120025359 Score: 215
Period size: 55 Copynumber: 3.5 Consensus size: 54
120025161 AACTTACCAT
* * *
120025171 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTT-CCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTGCCTTATAGAACTCATCAA
* * *
120025224 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAA
* * * * *
120025279 TGCCATGTCTTGACATGGTCTTTCATGATTTCC-TTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAA
120025333 TGCCATGCCTTG-CAATGGTCTTACATG
1 TGCCATGCCTTGAC-ATGGTCTTACATG
120025360 ATATCCTTAT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 5 0.04
53 32 0.28
54 33 0.29
55 43 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAA
Done.