Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 159 of 204
Found at i:48081280 original size:12 final size:12
Alignment explanation
Indices: 48081263--48081288 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48081253 GCTTATGAGT
48081263 TACTTATTGTGA
1 TACTTATTGTGA
48081275 TACTTATTGTGA
1 TACTTATTGTGA
48081287 TA
1 TA
48081289 TATGCACGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (12 bp):
TACTTATTGTGA
Found at i:48081556 original size:70 final size:70
Alignment explanation
Indices: 48081419--48081559 Score: 196
Period size: 70 Copynumber: 2.0 Consensus size: 70
48081409 ATGTCATTTG
* *
48081419 ACTGATGATAGGTCTATCTCTTAGTTTTGAAATGCACTTTGAATCACCCAATTTCGAGTATGAGA
1 ACTGATGATAGGTCTATCTCTTAGTTTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGAGA
48081484 GCTCA
66 GCTCA
* * * *
48081489 ACTGATGATAGAG-CTATCTCTTA-TATTCGAAATGCGCTTTGAATCACCCAATTTCGTGTCCGG
1 ACTGATGATAG-GTCTATCTCTTAGT-TTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGA
48081552 GAGCTCA
64 GAGCTCA
48081559 A
1 A
48081560 GTTATGGTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
69 1 0.02
70 61 0.97
71 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (70 bp):
ACTGATGATAGGTCTATCTCTTAGTTTCGAAATGCACTTTGAATCACCCAATTTCGAGTACGAGA
GCTCA
Found at i:48081959 original size:16 final size:16
Alignment explanation
Indices: 48081938--48081968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48081928 TTTTTTATTT
48081938 AATACAACTATTTGTC
1 AATACAACTATTTGTC
*
48081954 AATACAACTCTTTGT
1 AATACAACTATTTGT
48081969 GTTTTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (16 bp):
AATACAACTATTTGTC
Found at i:48085929 original size:62 final size:62
Alignment explanation
Indices: 48085832--48085957 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
48085822 CTCCCATTTT
* * * *
48085832 CACTCCCATTATCCCATTTTCATGCCTTTGTCCCCTTGTAAAAACCCGATTTTTAGTGGTGA
1 CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAAAAACCCAATTTTTAGTGGTGA
* *
48085894 CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAACAACCTAATTTTTAGTGGTGA
1 CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAAAAACCCAATTTTTAGTGGTGA
48085956 CA
1 CA
48085958 GAACAGTGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (62 bp):
CACTCACATTATCCCATTTCCATGCCTTTGTCCCCTTATAAAAACCCAATTTTTAGTGGTGA
Found at i:48087333 original size:36 final size:36
Alignment explanation
Indices: 48087286--48087361 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
48087276 TGTTATTGGG
* * *
48087286 TGGACTGGCTCTTATGAGCATTTGGTGTGTTTCAGT
1 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
48087322 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
1 TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
48087358 TGGA
1 TGGA
48087362 ATATCGATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.39
Consensus pattern (36 bp):
TGGACTAGCTCTTATGAGCATATGGTGTGTTTCAAT
Found at i:48089947 original size:3 final size:3
Alignment explanation
Indices: 48089939--48089986 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
48089929 CATGGCATTG
48089939 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48089987 AAGGGAGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48096901 original size:26 final size:26
Alignment explanation
Indices: 48096871--48096940 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
48096861 ATGCATATTT
48096871 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
48096897 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
48096926 AATTATTTAATATTT
1 AATTATTT-ATATTT
48096941 TAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:48096910 original size:16 final size:16
Alignment explanation
Indices: 48096889--48096938 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
48096879 ATATTTAGTC
48096889 ATATAATAAATTATTA
1 ATATAATAAATTATTA
48096905 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
48096918 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
48096935 ATAT
1 ATAT
48096939 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:48096914 original size:29 final size:30
Alignment explanation
Indices: 48096881--48096938 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48096871 AATTATTTAT
48096881 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
48096910 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
48096939 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:48097028 original size:15 final size:15
Alignment explanation
Indices: 48097008--48097064 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
48096998 ATTCAATATT
48097008 AATATTTTAATAATA
1 AATATTTTAATAATA
* *
48097023 AATATTTATTACAATTATG
1 AATA-TT-TT--AATAATA
*
48097042 AATATATTAATAATA
1 AATATTTTAATAATA
48097057 AATATTTT
1 AATATTTT
48097065 GTAGTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:48098533 original size:2 final size:2
Alignment explanation
Indices: 48098526--48098550 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48098516 TGATAATAAA
48098526 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 A
48098551 AAAAGAAAGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48106568 original size:19 final size:19
Alignment explanation
Indices: 48106544--48106584 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
48106534 TAGTCGTTAC
48106544 CTTAGCAGGATCTCTCAAT
1 CTTAGCAGGATCTCTCAAT
*
48106563 CTTAGCAGGATCTCTCGAT
1 CTTAGCAGGATCTCTCAAT
48106582 CTT
1 CTT
48106585 CTACTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (19 bp):
CTTAGCAGGATCTCTCAAT
Found at i:48107520 original size:31 final size:29
Alignment explanation
Indices: 48107485--48107556 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
48107475 AACGGCTCAA
*
48107485 TGACTAAAATGTTACAATATGTT-AATGTAAG
1 TGACTAAAATGTTA-AA-AT-TTAAATATAAG
*
48107516 TGACTAAAACG-TAAAATTTCAAATATAAG
1 TGACTAAAATGTTAAAATTT-AAATATAAG
48107545 TGACTAAAATGT
1 TGACTAAAATGT
48107557 AACCTGAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 2 0.06
29 19 0.54
30 2 0.06
31 10 0.29
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (29 bp):
TGACTAAAATGTTAAAATTTAAATATAAG
Found at i:48107662 original size:23 final size:21
Alignment explanation
Indices: 48107632--48107675 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
48107622 TATATTCTTT
*
48107632 GTTATATTCTATCCTTATGTTA
1 GTTATATTATATCCTT-TGTTA
*
48107654 GTTAGTATTATATTCTTTGTTA
1 GTTA-TATTATATCCTTTGTTA
48107676 ATTTTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (21 bp):
GTTATATTATATCCTTTGTTA
Found at i:48108119 original size:30 final size:30
Alignment explanation
Indices: 48108084--48108142 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
48108074 TATTTTATTG
48108084 TTAATTTTGTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
*
48108114 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
48108143 GCTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:48118450 original size:185 final size:184
Alignment explanation
Indices: 48118121--48118482 Score: 507
Period size: 185 Copynumber: 2.0 Consensus size: 184
48118111 CCGCAAAATC
** *
48118121 TCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACTAGAATTAGTGGCGATTATGGGAAAAC
1 TCTTAACCAAAACGCAAAGTTTTCGTCTTGAGGTATACTAGAATTAGTGGCGATTATGGGAAAAC
* * * *
48118186 GCCGCTAAATCGTATTAGCGGCATTTTGCGATAAGCGCCGCAAAATATCTTAACCAAAACGCATC
66 GCCGCAAAAACGTATTAGCGGCATTTTGCGATAAGCGCCACAAAATATCTGAACCAAAACGCATC
*
48118251 GTTTCGGTCTTGATGTATCCTAAAATTAGTGGCGCTTACGGGGAAACACCGTTA
131 GTTTCGGTCTTGATGTATACTAAAATTAGTGGCGCTTACGGGGAAACACCGTTA
* ** *
48118305 TCTTAACCAAAACGCAAAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCGTTTATGGGAAAAC
1 TCTTAACCAAAACGCAAAGTTTTCGTCTTGAGGTATACTAGAATTAGTGGCGATTATGGGAAAAC
*
48118369 GCCGCAAAAGGACAGTATTAGCGGCGCTTTTTG-GA-AA-CGCCACAAAATATCTGAACCAAAAC
66 GCCGCAAAA--AC-GTATTAGC-G-GCATTTTGCGATAAGCGCCACAAAATATCTGAACCAAAAC
* * *
48118431 GCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAAAC
126 GCATCGTTTCGGTCTTGATGTATACTAAAATTAGTGGCGCTTACGGGGAAAC
48118483 GCTGCTAAAA
Statistics
Matches: 157, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
183 48 0.31
184 17 0.11
185 72 0.46
186 10 0.06
187 3 0.02
188 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (184 bp):
TCTTAACCAAAACGCAAAGTTTTCGTCTTGAGGTATACTAGAATTAGTGGCGATTATGGGAAAAC
GCCGCAAAAACGTATTAGCGGCATTTTGCGATAAGCGCCACAAAATATCTGAACCAAAACGCATC
GTTTCGGTCTTGATGTATACTAAAATTAGTGGCGCTTACGGGGAAACACCGTTA
Found at i:48118483 original size:114 final size:113
Alignment explanation
Indices: 48118303--48118818 Score: 531
Period size: 114 Copynumber: 4.5 Consensus size: 113
48118293 GAAACACCGT
* * * ** * *
48118303 TATCTTAACCAAAACGCAAAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCGTTTATGGGAAA
1 TATCTGAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGG-AA
* * * * *
48118367 ACGCCGCAAAAGGACAGTATTAGCGGCGCTTTTTGGAAACGCCACAAAA
65 ACGCCGCAAAAGAATAGTATTAGCGGCGCTTTGTGGAAGCGCCGCAAAA
*
48118416 TATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGTGAA
1 TATCTGAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGG-GAA
* * * * * *
48118481 ACGCTGCTAAAA-TATAGTATTAGAGGCGATTCGTGGCTAGCGCCGCAAAA
65 ACGCCGC-AAAAGAATAGTATTAGCGGCGCTTTGTGG-AAGCGCCGCAAAA
* ** *
48118531 TATC-GTAACCAAAATGCAGCGTTTTGGTCTTGATGTATA-TAAAATTAGTGGCGCTTACGGGAA
1 TATCTG-AACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAA
* *
48118594 ACCGCCGCGAAAGAATAGTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAA
65 A-CGCCGCAAAAGAATAGTATTAGCGGCGCTTTGTG-GAAGCGCCGCAAAA
*
48118645 TATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
1 TATCTGAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
** * *
48118710 CGCCGTTAAAGCATAGTATTAGCGGCGCTTTTACGCTTTGCTAAAAGCGCCGCAAAA
66 CGCCGCAAAAGAATAGTATTAGCGGCGC-TTT--G---TG---GAAGCGCCGCAAAA
* * * *
48118767 TATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTAT-GTAAGAATTAGTGGC
1 TATCTGAACCAAAACGCATAGTTTTGGTCTTGATGTATACT-AGAATTAGTGGC
48118819 ACTTTTTGTA
Statistics
Matches: 342, Mismatches: 42, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
113 25 0.07
114 174 0.51
115 78 0.23
117 1 0.00
120 3 0.01
121 27 0.08
122 34 0.10
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (113 bp):
TATCTGAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAA
CGCCGCAAAAGAATAGTATTAGCGGCGCTTTGTGGAAGCGCCGCAAAA
Found at i:48119401 original size:8 final size:7
Alignment explanation
Indices: 48119374--48119430 Score: 69
Period size: 7 Copynumber: 8.0 Consensus size: 7
48119364 AGGTTTTGAT
*
48119374 GTTTTGG
1 GTTTAGG
48119381 GTTTAGG
1 GTTTAGG
48119388 GTTTAGG
1 GTTTAGG
48119395 AGTTTAGG
1 -GTTTAGG
*
48119403 GTTTAAG
1 GTTTAGG
*
48119410 GTTTAAG
1 GTTTAGG
*
48119417 GTTTGGG
1 GTTTAGG
48119424 GTTTAGG
1 GTTTAGG
48119431 CTGCTTTAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
7 37 0.84
8 7 0.16
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:48121264 original size:15 final size:15
Alignment explanation
Indices: 48121244--48121272 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48121234 TTCTTATACT
48121244 GCATTAAGTTGTTTC
1 GCATTAAGTTGTTTC
48121259 GCATTAAGTTGTTT
1 GCATTAAGTTGTTT
48121273 TGATTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (15 bp):
GCATTAAGTTGTTTC
Found at i:48121630 original size:14 final size:12
Alignment explanation
Indices: 48121600--48121641 Score: 66
Period size: 13 Copynumber: 3.3 Consensus size: 12
48121590 CATGCTGTTT
48121600 TTTTTAACATATA
1 TTTTTAA-ATATA
48121613 TTTTTAATATATA
1 TTTTTAA-ATATA
48121626 TTTTTAAATATA
1 TTTTTAAATATA
48121638 TTTT
1 TTTT
48121642 ACATGACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTAAATATA
Found at i:48121701 original size:13 final size:13
Alignment explanation
Indices: 48121685--48121774 Score: 74
Period size: 13 Copynumber: 6.8 Consensus size: 13
48121675 TTACTAAAAT
*
48121685 TTACTTTAATATA
1 TTACTTAAATATA
* *
48121698 TTACTTGAATATG
1 TTACTTAAATATA
*
48121711 TTACTTAAATAAA
1 TTACTTAAATATA
*
48121724 TTACTTAAATACA
1 TTACTTAAATATA
*
48121737 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
48121751 TTGGTTAAATTTA
1 TTACTTAAATATA
48121764 TTACTTAAATA
1 TTACTTAAATA
48121775 AATCAGTACC
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
12 3 0.05
13 48 0.81
14 5 0.08
15 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:48122550 original size:9 final size:9
Alignment explanation
Indices: 48122525--48122979 Score: 182
Period size: 9 Copynumber: 51.7 Consensus size: 9
48122515 CTTATATATA
48122525 AACTTACAT
1 AACTTACAT
48122534 AA--TACAT
1 AACTTACAT
48122541 AACTTACAT
1 AACTTACAT
*
48122550 AACTTATAT
1 AACTTACAT
*
48122559 AGAACTTATAT
1 --AACTTACAT
*
48122570 AACAACTTGCAT
1 ---AACTTACAT
48122582 AACTTACAT
1 AACTTACAT
*
48122591 AA-TAACATAAT
1 AACTTAC---AT
*
48122602 AACGTACAT
1 AACTTACAT
*
48122611 -AC-TATAT
1 AACTTACAT
* *
48122618 AACCTACGT
1 AACTTACAT
* *
48122627 AAATTGCAT
1 AACTTACAT
*
48122636 AACTCACAT
1 AACTTACAT
*
48122645 AA--TACAC
1 AACTTACAT
*
48122652 AATTTACAT
1 AACTTACAT
* *
48122661 AACTAAAAT
1 AACTTACAT
48122670 AACTTACAT
1 AACTTACAT
48122679 AA--TACAT
1 AACTTACAT
48122686 AACTTACATT
1 AACTTACA-T
*
48122696 AATATTATACAT
1 -A-ACT-TACAT
48122708 AACTTACAT
1 AACTTACAT
48122717 AACTTA-ATT
1 AACTTACA-T
*
48122726 AATACTAAACAT
1 -A-ACT-TACAT
*
48122738 AACTTGTCA-
1 AACTT-ACAT
*
48122747 GACTTACAT
1 AACTTACAT
48122756 AACTTACAT
1 AACTTACAT
*
48122765 AAC--ACAC
1 AACTTACAT
*
48122772 AACTTACAC
1 AACTTACAT
48122781 AACTTACAT
1 AACTTACAT
48122790 AACTTA-ATT
1 AACTTACA-T
48122799 AA-TTA-AT
1 AACTTACAT
*
48122806 -ACTAAACAT
1 AACT-TACAT
48122815 AACTTATCA-
1 AACTTA-CAT
*
48122824 GACTTACAT
1 AACTTACAT
48122833 AACTTACAT
1 AACTTACAT
*
48122842 AA--TACAC
1 AACTTACAT
48122849 AACTTACAT
1 AACTTACAT
48122858 AACTTACAT
1 AACTTACAT
*
48122867 AA--TACAC
1 AACTTACAT
*
48122874 AACTTATAT
1 AACTTACAT
* *
48122883 AACTTAAAA
1 AACTTACAT
48122892 AACTTACAT
1 AACTTACAT
*
48122901 AA--TACAC
1 AACTTACAT
*
48122908 AACTTATATAT
1 AAC-T-TACAT
*
48122919 AACTTTCAT
1 AACTTACAT
48122928 AACTTAC-T
1 AACTTACAT
*
48122936 TA--TA-AT
1 AACTTACAT
48122942 AACTTACAT
1 AACTTACAT
*
48122951 AACGTAC-T
1 AACTTACAT
*
48122959 TA--TA-AT
1 AACTTACAT
48122965 AACTTACAT
1 AACTTACAT
48122974 AACTTA
1 AACTTA
48122980 TTAATATTTA
Statistics
Matches: 335, Mismatches: 60, Indels: 102
0.67 0.12 0.21
Matches are distributed among these distances:
6 9 0.03
7 49 0.15
8 26 0.08
9 191 0.57
10 15 0.04
11 25 0.07
12 15 0.04
13 5 0.01
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:48122604 original size:32 final size:31
Alignment explanation
Indices: 48122530--48122604 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
48122520 ATATAAACTT
* *
48122530 ACATAATACATAACTTACATAACTTATATAGA
1 ACATAATA-ACAACTTACATAACTTACATAGA
* * *
48122562 ACTTATATAACAACTTGCATAACTTACATAATA
1 ACATA-ATAACAACTTACATAACTTACAT-AGA
48122595 ACATAATAAC
1 ACATAATAAC
48122605 GTACATACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
32 26 0.74
33 9 0.26
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (31 bp):
ACATAATAACAACTTACATAACTTACATAGA
Found at i:48122729 original size:30 final size:31
Alignment explanation
Indices: 48122674--48122742 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
48122664 TAAAATAACT
*
48122674 TACATAA--TACATAACTTACATTAATATTA
1 TACATAACTTACATAACTTACATTAATACTA
48122703 TACATAACTTACATAACTTA-ATTAATACTA
1 TACATAACTTACATAACTTACATTAATACTA
*
48122733 AACATAACTT
1 TACATAACTT
48122743 GTCAGACTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 7 0.19
30 18 0.50
31 11 0.31
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (31 bp):
TACATAACTTACATAACTTACATTAATACTA
Found at i:48122752 original size:77 final size:73
Alignment explanation
Indices: 48122703--48122868 Score: 226
Period size: 77 Copynumber: 2.2 Consensus size: 73
48122693 ATTAATATTA
* *
48122703 TACATAACTTACATAAC-TTAATTAATACTAAACATAACTTGTCAGACTTACATAACTTACATAA
1 TACACAACTTACATAACATTAATTAATACTAAACATAACTTATCAGACTTACATAAC-TACATAA
*
48122767 CACACAACT
65 CACAAAACT
48122776 TACACAACTTACATAACTTAATTAATTAATACTAAACATAACTTATCAGACTTACATAACTTACA
1 TACACAACTTACATAAC---ATTAATTAATACTAAACATAACTTATCAGACTTACATAAC-TACA
* *
48122841 TAATACACAACT
62 TAACACAAAACT
*
48122853 TACATAACTTACATAA
1 TACACAACTTACATAA
48122869 TACACAACTT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
73 16 0.19
77 69 0.81
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (73 bp):
TACACAACTTACATAACATTAATTAATACTAAACATAACTTATCAGACTTACATAACTACATAAC
ACAAAACT
Found at i:48122853 original size:34 final size:33
Alignment explanation
Indices: 48122815--48122914 Score: 99
Period size: 34 Copynumber: 3.2 Consensus size: 33
48122805 TACTAAACAT
48122815 AACTTATCAGACTTACATAACTTACATAAT----
1 AACTTATCA-ACTTACATAACTTACATAATACAC
48122845 -AC--A-CAACTTACATAACTTACATAATACAC
1 AACTTATCAACTTACATAACTTACATAATACAC
* * *
48122874 AACTTATATAACTTAAAAAACTTACATAATACAC
1 AACTTAT-CAACTTACATAACTTACATAATACAC
48122908 AACTTAT
1 AACTTAT
48122915 ATATAACTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
25 20 0.34
26 2 0.03
27 1 0.02
29 2 0.03
30 2 0.03
32 1 0.02
34 30 0.52
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (33 bp):
AACTTATCAACTTACATAACTTACATAATACAC
Found at i:48122915 original size:34 final size:34
Alignment explanation
Indices: 48122849--48122917 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
48122839 CATAATACAC
* *
48122849 AACTTACATAACTTACATAATACACAACTTATAT
1 AACTTAAAAAACTTACATAATACACAACTTATAT
48122883 AACTTAAAAAACTTACATAATACACAACTTATAT
1 AACTTAAAAAACTTACATAATACACAACTTATAT
48122917 A
1 A
48122918 TAACTTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (34 bp):
AACTTAAAAAACTTACATAATACACAACTTATAT
Found at i:48124770 original size:21 final size:21
Alignment explanation
Indices: 48124746--48124816 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
48124736 CTACAATTTA
*
48124746 AAGCAGAAGCAGCAGCGAGGG
1 AAGCAGAAGCTGCAGCGAGGG
**
48124767 AAGCAGTGGCTGCAGCGAGGG
1 AAGCAGAAGCTGCAGCGAGGG
* * * *
48124788 AATCAGAGGCTGTAGCGAGAG
1 AAGCAGAAGCTGCAGCGAGGG
48124809 AAGCAGAA
1 AAGCAGAA
48124817 TAGAGCAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.41, T:0.07
Consensus pattern (21 bp):
AAGCAGAAGCTGCAGCGAGGG
Found at i:48125212 original size:42 final size:42
Alignment explanation
Indices: 48125151--48125320 Score: 268
Period size: 42 Copynumber: 4.0 Consensus size: 42
48125141 CGCTAAAGAA
*
48125151 CGCTTAGAAAAAAATGCCGCTAAAGACCATGTTCTTTAGCGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
*
48125193 CGCTTAGAAAGAAACGCCGCTAAAGACCATGTTCTTTAGCGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
* * *
48125235 CTCTTAGAAAAAAATGCCGCTAAAGACCATGTTCTTTAGAGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
* * *
48125277 CGCTTATAAAAAAACACCGCTAATGACCATGTTCTTTAGCGG
1 CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
48125319 CG
1 CG
48125321 TTTTTGTTTG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 116 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
CGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
Found at i:48136100 original size:22 final size:21
Alignment explanation
Indices: 48136075--48136115 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
48136065 TACTTGTTTT
48136075 AATATTATTAATATCATTATAC
1 AATATTATTAATAT-ATTATAC
*
48136097 AATATTATTATTATATTAT
1 AATATTATTAATATATTAT
48136116 TATTGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTATTAATATATTATAC
Found at i:48140387 original size:8 final size:8
Alignment explanation
Indices: 48140374--48140411 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
48140364 GACTCGAAAG
48140374 AAAAATCA
1 AAAAATCA
48140382 AAAAATC-
1 AAAAATCA
48140389 AAAAATC-
1 AAAAATCA
48140396 AAAAATCA
1 AAAAATCA
48140404 AAAAATCA
1 AAAAATCA
48140412 TAAGAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATCA
Found at i:48140392 original size:7 final size:7
Alignment explanation
Indices: 48140374--48140407 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
48140364 GACTCGAAAG
48140374 AAAAATC
1 AAAAATC
48140381 AAAAAATC
1 -AAAAATC
48140389 AAAAATC
1 AAAAATC
48140396 AAAAATC
1 AAAAATC
48140403 AAAAA
1 AAAAA
48140408 ATCATAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:48140421 original size:22 final size:21
Alignment explanation
Indices: 48140370--48140421 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
48140360 TTCAGACTCG
48140370 AAAGAAAAATCAAAAAATCAA
1 AAAGAAAAATCAAAAAATCAA
*
48140391 AAATCAAAAATCAAAAAATCATA
1 AAA-GAAAAATCAAAAAATCA-A
*
48140414 AGAGAAAA
1 AAAGAAAA
48140422 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.73, C:0.10, G:0.06, T:0.12
Consensus pattern (21 bp):
AAAGAAAAATCAAAAAATCAA
Found at i:48141640 original size:42 final size:43
Alignment explanation
Indices: 48141544--48141654 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 43
48141534 AAAGGGCAGC
* * **
48141544 TCAAATTTTGGAACAAAATGGGGCACGAAGTGATCAGAGCGGCT
1 TCAAATTTT-GATCAAAATGGGGCATGAAGTGATCAGAGCGAAT
* * * *
48141588 T-GAATATTGATCAAAATGGGGCATGAGGTGATCAGAG-TAAT
1 TCAAATTTTGATCAAAATGGGGCATGAAGTGATCAGAGCGAAT
* *
48141629 TCAAATTTTGATCAGATTGGGGCATG
1 TCAAATTTTGATCAAAATGGGGCATG
48141655 TGATGATCTT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 46 0.85
43 5 0.09
44 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (43 bp):
TCAAATTTTGATCAAAATGGGGCATGAAGTGATCAGAGCGAAT
Found at i:48143292 original size:50 final size:50
Alignment explanation
Indices: 48142770--48144124 Score: 709
Period size: 50 Copynumber: 27.1 Consensus size: 50
48142760 AAAATCGTAG
* * * ** * * *
48142770 ATTGCAATTCAAAAGATTGAAGCCACAATGGTAAATCTCACCTCCCTGGC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * **
48142820 GA-TGC-AGTGAAACAGATCGAAGCTACGACGGCGAATTTCACTTCCTTGAC
1 -ATTGCAATTTAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
48142870 ATTGTAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*** *
48142920 GA-TGC-AGCAAAATAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTTAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * *
48142970 ATTGTAATTTAAAAGATTAAAGCTACAACAGCGAATCTCACCTCCCTGAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
**** * * * *
48143020 GA-TGCAGCGGAACAGATTGAAGTTACGACGGTGAATCTCACTTCCCCGAC
1 -ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
48143070 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGGC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
**** * * * *
48143120 GA-TGCAGCGGAATAGATCGAAGCTACGACGGTGAATCTCACTTCCCCGAC
1 -ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * **
48143170 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
** **** * * *
48143220 GGTGCAGCGGAACAGATTGAAGCTACGACGACGAATCTCACTTCCCCGAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * **
48143270 ATTGCAATTTAAAAAATCGAAGCCACAACGACGAATCTTACTT-CTAGAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*** ** * *
48143319 GA-TGC-AGCAAAACAGATCAAAGCTACGACGACGAATCTCACTTCCCCGAC
1 -ATTGCAATTTAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * * *
48143369 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * ** * ** * *
48143419 AGTGCAGTTGAACAGATTGAAGCTACAACAACGGATCTTGCTTTCTCGAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * * * * *
48143469 ATTGCAATTTAAAAGATCGAAGCCACAAAGGTGAATCTTATTTCTCAGGC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
**** * * *
48143519 GA-TGCAGCGGAACAA-ATTGAAGCTACGACGACGAATCTCACTTCCCAGAC
1 -ATTGCAATTTAA-AAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * *
48143569 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTA-TTTCCCAAGC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGA-C
**** * * *
48143619 GA-TGCAGCGGAACAGATTGAAGTTACGACGGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * * * *
48143669 ATTGCAATTTAAAAGATCGATGCCACAACGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
**** * * *
48143719 GA-TGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTTCCCGAC
1 -ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
48143769 ATTGCAATTCAAAAGATTGAAG-TCACAACGGCAAATCTCA-TTTCCCTAGC
1 ATTGCAATTTAAAAGATTGAAGCT-ACAACGGCGAATCTCACTTCCCCGA-C
* ** * * * **
48143819 GA-TGCAGTGGAACAGATTGAAGCTACGATGGCGAATCTCACTTCCCTAAC
1 -ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * *
48143869 ATTGCAATTCAAAAGATTGAAGCCACCAA-GGCGAATTTTACTTTCCAGAC
1 ATTGCAATTTAAAAGATTGAAGCTA-CAACGGCGAATCTCACTTCCCCGAC
** * * ** * * **
48143919 GGTACAGTGGAACAGATTGAAGCTACAACGGCAAATCTTTCTTCCCCGAC
1 ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
** * * * * *
48143969 ATTGTGATTAAAAAGATTGAAGAC-ACAACGACGAATCTTACTCCCCCGGC
1 ATTGCAATTTAAAAGATTGAAG-CTACAACGGCGAATCTCACTTCCCCGAC
** *** * ** **
48144019 GGTGC-AGCGAAACAGATTGAAGCTACAACGGCGAATTTTGCTTCCTTGAC
1 ATTGCAATTTAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
48144069 ATTGCAA-TTAAATAGATGGAAGCTACGACGGCGAATCTTACTTCCTCGAC
1 ATTGCAATTTAAA-AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
48144119 ATTGCA
1 ATTGCA
48144125 GTTAAACAGA
Statistics
Matches: 953, Mismatches: 313, Indels: 77
0.71 0.23 0.06
Matches are distributed among these distances:
48 4 0.00
49 73 0.08
50 838 0.88
51 38 0.04
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (50 bp):
ATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
Found at i:48144110 original size:100 final size:100
Alignment explanation
Indices: 48142770--48144113 Score: 1458
Period size: 100 Copynumber: 13.4 Consensus size: 100
48142760 AAAATCGTAG
* * ** * * * * *
48142770 ATTGCAATTCAAAAGATTGAAGCCACAATGGTAAATCTCACCTCCCTGGCGATGCAGTGAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * **
48142835 ATCGAAGCTACGACGGCGAATTTCACTTCCTTGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * * ** *
48142870 ATTGTAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGACGATGCAGCAAAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
48142935 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * * *
48142970 ATTGTAATTTAAAAGATTAAAGCTACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
48143035 ATTGAAGTTACGACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * *
48143070 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGGCGATGCAGCGGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
48143135 ATCGAAGCTACGACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * *
48143170 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTA-ACGGTGCAGCGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGGCGATGCAGCGGAACA
*
48143234 GATTGAAGCTACGACGACGAATCTCACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * **
48143270 ATTGCAATTTAAAAAATCGAAGCCACAACGACGAATCTTACTT-CTAGACGATGCAGCAAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
** *
48143334 ATCAAAGCTACGACGACGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * **
48143369 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* ** * ** * *
48143433 GATTGAAGCTACAACAACGGATCTTGCTTTCTCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * *
48143469 ATTGCAATTTAAAAGATCGAAGCCACAAAGGTGAATCTTATTTCTCAGGCGATGCAGCGGAACAA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
48143534 ATTGAAGCTACGACGACGAATCTCACTTCCCAGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
48143569 ATTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAAGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
*
48143634 ATTGAAGTTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
48143669 ATTGCAATTTAAAAGATCGATGCCACAACGGTGAATCTTATTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
*
48143734 ATTGAAGCTACGACGGCGAATCTCACTTTCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * *
48143769 ATTGCAATTCAAAAGATTGAAGTCACAACGGCAAATCTCATTTCCCTA-GCGATGCAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGGCGATGCAGCGGAACA
* **
48143833 GATTGAAGCTACGATGGCGAATCTCACTTCCCTAAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
48143869 ATTGCAATTCAAAAGATTGAAGCCACCAA-GGCGAATTTTACTTTCCAGACGGTACAGTGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCA-CAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACA
* * **
48143933 GATTGAAGCTACAACGGCAAATCTTTCTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
** * * * * * * *
48143969 ATTGTGATTAAAAAGATTGAAGACACAACGACGAATCTTACTCCCCCGGCGGTGCAGCGAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * ** **
48144034 ATTGAAGCTACAACGGCGAATTTTGCTTCCTTGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * *
48144069 ATTGCAA-TTAAATAGATGGAAGCTACGACGGCGAATCTTACTTCC
1 ATTGCAATTTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCC
48144114 TCGACATTGC
Statistics
Matches: 1084, Mismatches: 150, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.00
99 96 0.09
100 982 0.91
101 5 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
Found at i:48145743 original size:22 final size:21
Alignment explanation
Indices: 48145718--48145758 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
48145708 TACTTGTTTT
48145718 AATATTATTAATATCATTATAC
1 AATATTATTAATAT-ATTATAC
*
48145740 AATATTATTATTATATTAT
1 AATATTATTAATATATTAT
48145759 TATTGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTATTAATATATTATAC
Found at i:48153782 original size:62 final size:62
Alignment explanation
Indices: 48153682--48153819 Score: 231
Period size: 62 Copynumber: 2.2 Consensus size: 62
48153672 AATTCGGATT
* *
48153682 ACCCGTCCGGGTTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAGGATC
1 ACCCGTCCGGGCTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
* * *
48153744 ACTCGTCCGAGCTAAATTTATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
1 ACCCGTCCGGGCTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
48153806 ACCCGTCCGGGCTA
1 ACCCGTCCGGGCTA
48153820 GATCCTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (62 bp):
ACCCGTCCGGGCTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATAAGATC
Found at i:48159644 original size:20 final size:20
Alignment explanation
Indices: 48159621--48159665 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48159611 AAAAATTACA
48159621 AAAAAAT-AAAAGTAATTTTT
1 AAAAAATGAAAA-TAATTTTT
**
48159641 AAAATTTGAAAATAATTTTT
1 AAAAAATGAAAATAATTTTT
48159661 AAAAA
1 AAAAA
48159666 TTGTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAAATGAAAATAATTTTT
Found at i:48159698 original size:19 final size:18
Alignment explanation
Indices: 48159670--48159739 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 18
48159660 TAAAAATTGT
*
48159670 ATTTTTAAAAAAATTATAA
1 ATTTTAAAAAAAATTA-AA
48159689 ATTTTAAAAAAAAATCTAAAA
1 ATTTT-AAAAAAAAT-T-AAA
* *
48159710 AATATATAAAAAAATTAAA
1 ATTTTA-AAAAAAATTAAA
*
48159729 ATTTTATAAAA
1 ATTTTAAAAAA
48159740 TAATAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
18 4 0.10
19 12 0.29
20 10 0.24
21 14 0.34
22 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTTTAAAAAAAATTAAA
Found at i:48159736 original size:21 final size:21
Alignment explanation
Indices: 48159675--48159736 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
48159665 ATTGTATTTT
48159675 TAAAAAAATTATAAATTTTA-A
1 TAAAAAAATTA-AAATTTTATA
**
48159696 -AAAAAAATCTAAAA-AATATA
1 TAAAAAAAT-TAAAATTTTATA
48159716 TAAAAAAATTAAAATTTTATA
1 TAAAAAAATTAAAATTTTATA
48159737 AAATAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 2 0.06
20 17 0.52
21 14 0.42
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAAATTAAAATTTTATA
Found at i:48166305 original size:17 final size:16
Alignment explanation
Indices: 48166279--48166310 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
48166269 TTTGCAATAA
48166279 TTTTTAAAATTTTTAT
1 TTTTTAAAATTTTTAT
48166295 TTTTATAAAATTTTTA
1 TTTT-TAAAATTTTTA
48166311 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAAAATTTTTAT
Found at i:48166474 original size:16 final size:16
Alignment explanation
Indices: 48166453--48166488 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
48166443 GTGGAAGTTA
48166453 AAAAGAAAGTT-GAGCT
1 AAAAG-AAGTTAGAGCT
48166469 AAAAGAAGTTAGAGCT
1 AAAAGAAGTTAGAGCT
48166485 AAAA
1 AAAA
48166489 TAGATAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (16 bp):
AAAAGAAGTTAGAGCT
Found at i:48177647 original size:23 final size:23
Alignment explanation
Indices: 48177598--48177651 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
48177588 CAGCTTGTAT
* * *
48177598 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTCTCAGCTCAACA
*
48177621 GAGCTTACCGTCTCAGCTCAATA
1 GAGCTTACCGTCTCAGCTCAACA
48177644 GAGCTTAC
1 GAGCTTAC
48177652 TGTTTATCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (23 bp):
GAGCTTACCGTCTCAGCTCAACA
Found at i:48181558 original size:43 final size:44
Alignment explanation
Indices: 48181492--48181608 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
48181482 AGCTCATACA
* * * *
48181492 ATGCCAACGTCCCAAACGTGGTCTTACATGT-AATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCACAAATCG
48181535 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCACAAATCG
48181579 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
48181609 ATAACAAACA
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
42 2 0.03
43 25 0.38
44 36 0.55
45 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCACAAATCG
Found at i:48184754 original size:25 final size:25
Alignment explanation
Indices: 48184726--48184786 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
48184716 TAAGCTCCTG
48184726 CGAGCTGAATATCGATAAGCGCATA
1 CGAGCTGAATATCGATAAGCGCATA
* * * *
48184751 CGAGCTGAGTGTCGGTAAGCTCATA
1 CGAGCTGAATATCGATAAGCGCATA
*
48184776 AGAGCTAGAAT
1 CGAGCT-GAAT
48184787 CGGTAACCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (25 bp):
CGAGCTGAATATCGATAAGCGCATA
Found at i:48188903 original size:2 final size:2
Alignment explanation
Indices: 48188896--48188921 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48188886 AATCATCAAG
48188896 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48188922 GAGATAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48208306 original size:22 final size:20
Alignment explanation
Indices: 48208270--48208328 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
48208260 GACCCGGCCT
48208270 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
48208292 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
48208313 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
48208329 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:48208342 original size:17 final size:17
Alignment explanation
Indices: 48208320--48208364 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
48208310 AAAAAGTATT
48208320 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
48208337 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
* *
48208353 ATAAATATATTT
1 TTAAAAATATTT
48208365 ATTATATCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:48217705 original size:19 final size:19
Alignment explanation
Indices: 48217683--48217746 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 19
48217673 AATTACAAAA
*
48217683 AAAAATCAAAATAATTTTT
1 AAAAATTAAAATAATTTTT
48217702 AAAAATTTAAAATAATTTTT
1 AAAAA-TTAAAATAATTTTT
* *
48217722 AAAATTTAAAAT-ATTTAT
1 AAAAATTAAAATAATTTTT
48217740 AAAAATT
1 AAAAATT
48217747 TCAAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 11 0.28
19 12 0.30
20 17 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTAAAATAATTTTT
Found at i:48217737 original size:9 final size:9
Alignment explanation
Indices: 48217699--48217777 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 9
48217689 CAAAATAATT
48217699 TTTAAAA-A
1 TTTAAAATA
48217707 TTTAAAATAA
1 TTTAAAAT-A
*
48217717 TTTTTAAA-A
1 -TTTAAAATA
48217726 TTTAAAATA
1 TTTAAAATA
*
48217735 TTTATAAAAA
1 TTTA-AAATA
*
48217745 TTTCAAAT-
1 TTTAAAATA
*
48217753 TTTAAAATT
1 TTTAAAATA
48217762 TTTAAAA-A
1 TTTAAAATA
48217770 TTCTAAAA
1 TT-TAAAA
48217778 AATATATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
8 22 0.39
9 21 0.37
10 8 0.14
11 6 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTAAAATA
Found at i:48217747 original size:19 final size:20
Alignment explanation
Indices: 48217690--48217752 Score: 85
Period size: 19 Copynumber: 3.2 Consensus size: 20
48217680 AAAAAAAATC
*
48217690 AAAATAATTTTTAAAAATTT
1 AAAATAATTTATAAAAATTT
*
48217710 AAAATAATTT-TTAAAATTT
1 AAAATAATTTATAAAAATTT
48217729 AAAAT-ATTTATAAAAATTT
1 AAAATAATTTATAAAAATTT
*
48217748 CAAAT
1 AAAAT
48217753 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
18 4 0.10
19 25 0.64
20 10 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATAATTTATAAAAATTT
Found at i:48217753 original size:45 final size:44
Alignment explanation
Indices: 48217704--48217808 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 44
48217694 TAATTTTTAA
* * *
48217704 AAATTTAAAATAATTTTTAAAATT-TAAAATATTTATAAAAA-TTT
1 AAATTTAAAAT--TTTTAAAAATTCTAAAAAATATATAAAAAGTTT
48217748 CAAATTTTAAAATTTTTAAAAATTCTAAAAAATATATAAAAAGTTT
1 -AAA-TTTAAAATTTTTAAAAATTCTAAAAAATATATAAAAAGTTT
* *
48217794 AATTTTAAATTTTTT
1 AAATTTAAAATTTTT
48217809 TCTAAAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
44 21 0.40
45 20 0.38
46 11 0.21
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (44 bp):
AAATTTAAAATTTTTAAAAATTCTAAAAAATATATAAAAAGTTT
Found at i:48217756 original size:27 final size:27
Alignment explanation
Indices: 48217698--48217771 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
48217688 TCAAAATAAT
*
48217698 TTTTAAAA-ATTTA-AAATAATTTTTAAA
1 TTTTAAAATATTTATAAA-AA-TTTCAAA
*
48217725 ATTTAAAATATTTATAAAAATTTCAAA
1 TTTTAAAATATTTATAAAAATTTCAAA
48217752 TTTTAAAAT-TTT-TAAAAATT
1 TTTTAAAATATTTATAAAAATT
48217772 CTAAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.19
26 3 0.07
27 21 0.50
28 7 0.17
29 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTTAAAATATTTATAAAAATTTCAAA
Found at i:48217768 original size:43 final size:44
Alignment explanation
Indices: 48217715--48217808 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
48217705 AATTTAAAAT
* *
48217715 AATTTTT-AAAATT-TAAAATATTTATAAAAA-TTTCAAATTTTAA
1 AATTTTTAAAAATTCTAAAAAATATATAAAAAGTTT--AATTTTAA
48217758 AATTTTTAAAAATTCTAAAAAATATATAAAAAGTTTAATTTTAA
1 AATTTTTAAAAATTCTAAAAAATATATAAAAAGTTTAATTTTAA
*
48217802 ATTTTTT
1 AATTTTT
48217809 TCTAAAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
43 7 0.16
44 20 0.44
45 15 0.33
46 3 0.07
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (44 bp):
AATTTTTAAAAATTCTAAAAAATATATAAAAAGTTTAATTTTAA
Found at i:48217778 original size:9 final size:9
Alignment explanation
Indices: 48217698--48217778 Score: 69
Period size: 9 Copynumber: 9.0 Consensus size: 9
48217688 TCAAAATAAT
48217698 TTTTAAAAA
1 TTTTAAAAA
*
48217707 TTTAAAATAA
1 TTTTAAA-AA
*
48217717 TTTTTAAAA
1 TTTTAAAAA
48217726 -TTTAAAATA
1 TTTTAAAA-A
48217735 TTTATAAAAA
1 TTT-TAAAAA
*
48217745 -TTT-CAAA
1 TTTTAAAAA
*
48217752 TTTTAAAAT
1 TTTTAAAAA
48217761 TTTTAAAAA
1 TTTTAAAAA
*
48217770 TTCTAAAAA
1 TTTTAAAAA
48217779 ATATATAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 3 0.05
8 10 0.18
9 29 0.51
10 10 0.18
11 5 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:48219449 original size:20 final size:20
Alignment explanation
Indices: 48219421--48219458 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48219411 ACATATCTGG
48219421 ATAAAAATTGATG-TAATGGA
1 ATAAAAATT-ATGATAATGGA
*
48219441 ATAACAATTATGATAATG
1 ATAAAAATTATGATAATG
48219459 TAAATGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.32
Consensus pattern (20 bp):
ATAAAAATTATGATAATGGA
Found at i:48219905 original size:3 final size:3
Alignment explanation
Indices: 48219897--48219987 Score: 146
Period size: 3 Copynumber: 29.3 Consensus size: 3
48219887 TAAATGGGTA
*
48219897 AAT AAT AAT AAT GAT AAGGT AAGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT AAT AAT AAT AAT
48219945 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48219988 CAACTATTTA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
3 77 0.92
4 4 0.05
5 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48222549 original size:72 final size:73
Alignment explanation
Indices: 48222423--48222630 Score: 204
Period size: 72 Copynumber: 2.8 Consensus size: 73
48222413 TTAATGATCT
* * * * * * *
48222423 ATGGCTTGAGACCCAATACATGTTGTT-GATTATTTGAAGCTTGTGTGAACAACATCGAATCATT
1 ATGGCTTGAGATCCAACACGTGTT-TTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAATCATT
*
48222487 CTTT-ATCG
65 CTTTAATAG
* * *
48222495 ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTATGTGAGTAACATTGAATCATTC
1 ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAATCATTC
*
48222560 TTTACCAATAT
66 TTT---AATAG
* * ** * *
48222571 ATAGCTTGAGATCCAGCACGTGTTACGGATTCTCTAAAGCTTGTGTGAGCATCGTCGAAT
1 ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAAT
48222631 AAAACTTGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
71 2 0.02
72 55 0.50
76 53 0.48
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (73 bp):
ATGGCTTGAGATCCAACACGTGTTTTGGATTCTCTAAAGCTTGTGTGAGCAACATCGAATCATTC
TTTAATAG
Found at i:48226636 original size:31 final size:31
Alignment explanation
Indices: 48226573--48226636 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
48226563 TTTTTTCATT
* *
48226573 TTTTTTTCTATTTCAACTGTTTCTTTTCAAA
1 TTTTTTTCTATTTCAACTATTTCTTTTAAAA
*
48226604 TTTTTTTCTATTTCACCTATATT-TTTTAAAA
1 TTTTTTTCTATTTCAACTAT-TTCTTTTAAAA
48226635 TT
1 TT
48226637 CCCATCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTTTTTCTATTTCAACTATTTCTTTTAAAA
Found at i:48231766 original size:13 final size:13
Alignment explanation
Indices: 48231748--48231772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48231738 CATACTCTCA
48231748 ATTTTTAATATTC
1 ATTTTTAATATTC
48231761 ATTTTTAATATT
1 ATTTTTAATATT
48231773 TTAGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTAATATTC
Found at i:48231798 original size:17 final size:17
Alignment explanation
Indices: 48231778--48231819 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
48231768 ATATTTTAGG
*
48231778 ATTATTTATGTTTTACA
1 ATTATTTAGGTTTTACA
*
48231795 ATTACTTAGGTTTTACA
1 ATTATTTAGGTTTTACA
48231812 ATTATTTA
1 ATTATTTA
48231820 AGCATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (17 bp):
ATTATTTAGGTTTTACA
Found at i:48233757 original size:24 final size:24
Alignment explanation
Indices: 48233730--48233777 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48233720 TCCACAGCAT
48233730 TTACTGGATGACCATCCAAGCTAC
1 TTACTGGATGACCATCCAAGCTAC
*
48233754 TTACTGGATGACTATCCAAGCTAC
1 TTACTGGATGACCATCCAAGCTAC
48233778 CCTAGTGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (24 bp):
TTACTGGATGACCATCCAAGCTAC
Found at i:48241011 original size:15 final size:13
Alignment explanation
Indices: 48240991--48241028 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
48240981 TATATGTAGG
48240991 TATAATAATATATAA
1 TATAATAATA-A-AA
48241006 TATAATAATAAAA
1 TATAATAATAAAA
48241019 -ATAATAATAA
1 TATAATAATAA
48241029 CAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAATAAAA
Found at i:48241033 original size:15 final size:15
Alignment explanation
Indices: 48241007--48241040 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48240997 AATATATAAT
*
48241007 ATAATAATAAAAATA
1 ATAATAACAAAAATA
*
48241022 ATAATAACAAAATTA
1 ATAATAACAAAAATA
48241037 ATAA
1 ATAA
48241041 AATAGACTAA
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAACAAAAATA
Found at i:48241284 original size:19 final size:21
Alignment explanation
Indices: 48241248--48241286 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
48241238 CCTTTTTAAA
*
48241248 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
48241269 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
48241287 AACAGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:48241515 original size:19 final size:19
Alignment explanation
Indices: 48241492--48241556 Score: 112
Period size: 19 Copynumber: 3.3 Consensus size: 19
48241482 TAATATTTTA
48241492 TATATCATATCTAAGATTG
1 TATATCATATCTAAGATTG
48241511 CATATATCATATCTAAGATTG
1 --TATATCATATCTAAGATTG
48241532 TATATCATATCTAAGATTG
1 TATATCATATCTAAGATTG
48241551 TATATC
1 TATATC
48241557 CTCGAAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
19 25 0.57
21 19 0.43
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (19 bp):
TATATCATATCTAAGATTG
Found at i:48241942 original size:44 final size:44
Alignment explanation
Indices: 48241865--48241981 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
48241855 ACTCTAATCC
** * *
48241865 ACTCCACTACAACTT-AGGGAGACGAGATTTGTTTATTTAGTCT
1 ACTCCACTACAACTTCAGGGAGATAAGACTTGTTTACTTAGTCT
* * *
48241908 GCTTCACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCT
1 ACTCCACTACAACTTCAGGGA-GATAAGACTTGTTTACTTAGTCT
*
48241952 ACTCCACTACAATTTCAGGGAGATAAGACT
1 ACTCCACTACAACTTCAGGGAGATAAGACT
48241982 AGACGCAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 15 0.25
44 42 0.70
45 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTCCACTACAACTTCAGGGAGATAAGACTTGTTTACTTAGTCT
Found at i:48242084 original size:44 final size:44
Alignment explanation
Indices: 48242036--48242326 Score: 158
Period size: 44 Copynumber: 6.7 Consensus size: 44
48242026 GTTTTGATCC
*
48242036 GCTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTCTAATCT
1 GCTCCACTGCAACTTCAGGAAGATAAGATTATTGGCTCTAATCT
* * *
48242080 GCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGAAGATAAGATTATTGGC-TC-T-AATCT
* * * * *
48242125 AC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTT-GCT-GAGTCT
1 GCTC-CACTGCAACTTCAGGAAGATAAGA-TT-ATTGGCTCTAATCT
* * * * *
48242169 GCTCCACTGCAACTTTAGGGAGATAAGACTA---GATGC-GATCT
1 GCTCCACTGCAACTTCAGGAAGATAAGATTATTGGCT-CTAATCT
* * * * * * *
48242210 GCT-CTCTGCAACTTCA-AAGAGATAAGATCCA-AGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGA-AGATAAGAT-TATTGGCTCTAATCT
* * * *
48242253 GCTCCACTGCAACTTCA-AAGAGATAGGATTATCGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGA-AGATAAGATTATTGGCTCTAATCT
* *
48242297 GCTTCACTGCAACTTCAGGGAGATAAGATT
1 GCTCCACTGCAACTTCAGGAAGATAAGATT
48242327 TGCCATTTTC
Statistics
Matches: 190, Mismatches: 38, Indels: 38
0.71 0.14 0.14
Matches are distributed among these distances:
40 21 0.11
41 7 0.04
42 4 0.02
43 13 0.07
44 112 0.59
45 28 0.15
47 2 0.01
48 1 0.01
49 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGAAGATAAGATTATTGGCTCTAATCT
Found at i:48242297 original size:217 final size:217
Alignment explanation
Indices: 48241911--48242337 Score: 696
Period size: 217 Copynumber: 2.0 Consensus size: 217
48241901 TTAGTCTGCT
* *
48241911 TCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTACTCCACTACAATTTCAGGGAGAT
1 TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTACTCCACTACAATTTCAGGGAGAT
* *
48241976 AAGACTAGACGCAATCTGCTCTCTGCAACTTCATAGAGATAAGATCCAAGGTTTTGATCCGCTCC
66 AAGACTAGACGCAATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTCC
* *
48242041 ACTGCAACTTCAGGAAGATAGGATTATTGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAA
131 ACTGCAACTTCAAGAAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAA
48242106 GATTTGCCATCTTCAGTCTACC
196 GATTTGCCATCTTCAGTCTACC
* * *
48242128 TCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTT-AGGGAGA
1 TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTACTCCACTACAA-TTTCAGGGAGA
* *
48242192 TAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTC
65 TAAGACTAGACGCAATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTC
* *
48242257 CACTGCAACTTCAA-AGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAGAT
130 CACTGCAACTTCAAGA-AGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGAT
*
48242321 AAGATTTGCCATTTTCA
194 AAGATTTGCCATCTTCA
48242338 ACCTACTCCG
Statistics
Matches: 194, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
216 1 0.01
217 190 0.98
218 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTACTCCACTACAATTTCAGGGAGAT
AAGACTAGACGCAATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGTTTTAATCCGCTCC
ACTGCAACTTCAAGAAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCCATCTTCAGTCTACC
Found at i:48242472 original size:132 final size:132
Alignment explanation
Indices: 48242313--48243153 Score: 1215
Period size: 132 Copynumber: 6.5 Consensus size: 132
48242303 CTGCAACTTC
* * * * *
48242313 AGGGAGATAAGATTTGCCATTTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* * * *
48242378 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACTGTCTTTGATCTGCTCCACTACTGT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48242443 TT
131 TT
** *
48242445 AGGGAGATAAGATCTACAATCTTCAACCTTTTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
48242510 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCTCTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48242575 TT
131 TT
* * * *
48242577 AGGGAGATAGGATCT---A----CAACCTACTCTGCTACTGCTCAGGGAGACAAGGCTTTGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
*
48242635 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48242700 TT
131 TT
* * * *
48242702 AGGGAGATAAGATCTACAATCTTCAACCTTCTCTGTTGCTGCTCAGGGATACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* **
48242767 TTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48242832 TT
131 TT
* * * * *
48242834 AGGGAGATAGGATCT---A----CAACCTACTCCGTTGCTTCTCAAGGAGACAAGGCTTTGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
48242892 TTAAATCCGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48242957 TT
131 TT
* * *
48242959 AGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCTGCTTAGAGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
*
48243024 TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48243089 TT
131 TT
* * **
48243091 AGAGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAATGAGACAAGGCTTGGTG
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
48243154 TTTCACCGGT
Statistics
Matches: 633, Mismatches: 62, Indels: 28
0.88 0.09 0.04
Matches are distributed among these distances:
125 226 0.36
128 2 0.00
129 2 0.00
132 403 0.64
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:48242636 original size:257 final size:257
Alignment explanation
Indices: 48242336--48243109 Score: 1314
Period size: 257 Copynumber: 3.0 Consensus size: 257
48242326 TTGCCATTTT
* *
48242336 CAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTT
1 CAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
* * *
48242401 GGAAAGATAAGATTTACTGTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATC
66 GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
*
48242466 TTCAACCTTTTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
131 TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
*
48242531 TTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGATAGGATCTA
196 TTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
* *
48242593 CAACCTACTCTGCTACTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
1 CAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
48242658 GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
66 GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * *
48242723 TTCAACCTTCTCTGTTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGTTTCCCACTATC
131 TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
*
48242788 TTGGAAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
196 TTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
* * * *
48242850 CAACCTACTCCGTTGCTTCTCAAGGAGACAAGGCTTTGTGGCTTAAATCCGCTTCCCACTATCTT
1 CAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
*
48242915 GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATT
66 GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * *
48242980 TTCAACCTACTCCGCTGCTGCTTAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
131 TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
* * * *
48243045 TTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTA
196 TTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
48243107 CAA
1 CAA
48243110 TCTTCAACCT
Statistics
Matches: 485, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
257 485 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (257 bp):
CAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTT
GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
TTCAACCTTCTCCGCTGCTGCTCAGGGATACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATC
TTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
Found at i:48242788 original size:389 final size:384
Alignment explanation
Indices: 48242313--48243153 Score: 1229
Period size: 389 Copynumber: 2.2 Consensus size: 384
48242303 CTGCAACTTC
* * * * * *
48242313 AGGGAGATAAGATTTGCCATTTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
*
48242378 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACT-GTCTTTGATCTGCTCCACTACTG
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-CTCGTCTTCGATCTGCTCCACTACTG
* * *
48242442 TTTAGGGAGATAAGATCTACAATCTTCAACCTTTTCCGCTGCTGCTCAGGGATACAAGGCTTGGT
130 CTTAGGGAGATAAGATCTACAA-C--CAA-C---TCCGCTGCTGCTCAAGGAGACAAGGCTTGGT
* * *
48242507 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCTCTAC
188 GGCTTAAATCCGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * * *
48242572 TGCTTAGGGAGATAGGATCT-A-CAACCTACTCTGCTACTGCTCAGGGAGACAAGGCTTTGTGGC
253 TGCTTAGGGAGATAAGATCTAATCAACCTACTCCGCTACTGCTCAGAGAGACAAGGCTTGGTGGC
* *
48242635 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGC
318 TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
48242700 TT
383 TT
* * *
48242702 AGGGAGATAAGATCTACAATCTTCAACCTTCTCTGTTGCTGCTCAGGGATACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
48242767 TTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTCTCGTCTTCGATCTGCTCCACTACTGC
* * * * *
48242832 TTAGGGAGATAGGATCTACAACCTACTCCGTTGCTTCTCAAGGAGACAAGGCTTTGTGGCTTAAA
131 TTAGGGAGATAAGATCTACAACCAACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAA
*
48242897 TCCGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGG
196 TCCGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* *
48242962 GAGATAAGATCTACAATTTTCAACCTACTCCGCTGCTGCTTAGAGAGACAAGGCTTGGTGGCTTA
261 GAGATAAGATCT--AA---TCAACCTACTCCGCTACTGCTCAGAGAGACAAGGCTTGGTGGCTTA
48243027 AATCTGCTTCCCACTATCTTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT
321 AATCTGCTTCCCACTATCTTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT
* **
48243091 AGAGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAATGAGACAAGGCTTGGTG
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
48243154 TTTCACCGGT
Statistics
Matches: 406, Mismatches: 38, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
382 106 0.26
385 2 0.00
386 2 0.00
388 2 0.00
389 294 0.72
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (384 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTCTCGTCTTCGATCTGCTCCACTACTGC
TTAGGGAGATAAGATCTACAACCAACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAA
TCCGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTAATCAACCTACTCCGCTACTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCT
GCTTCCCACTATCTTGGAAAAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT
Found at i:48242968 original size:44 final size:44
Alignment explanation
Indices: 48242919--48243103 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
48242909 TATCTTGGAA
* *
48242919 AGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGAG
* * ** * * * *
48242963 AGATAAGATCTACAAT-TTTCAACCTACTCCGCTGCTGCTTAGAG
1 AGATAAGATTTGCCGTCTTT-AATCTGCTCCACTACTGCTTAGAG
* ** ** * * * *
48243007 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTTAGAG
* **
48243051 AAATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGAG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGAG
48243095 AGATAAGAT
1 AGATAAGAT
48243104 CTACAATCTT
Statistics
Matches: 97, Mismatches: 38, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
44 78 0.80
45 4 0.04
46 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGAG
Found at i:48244393 original size:16 final size:15
Alignment explanation
Indices: 48244372--48244430 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
48244362 ATTGGCCTCT
48244372 CCTTTTGCTTTTTTTC
1 CCTTTT-CTTTTTTTC
48244388 CCTTTTTCTTTCTTTT-
1 CC-TTTTCTTT-TTTTC
* *
48244404 TCTTTTCTTTCTTTC
1 CCTTTTCTTTTTTTC
*
48244419 TCTTTT-TTTTTT
1 CCTTTTCTTTTTT
48244431 GAAAAATTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 8 0.22
15 14 0.38
16 7 0.19
17 8 0.22
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (15 bp):
CCTTTTCTTTTTTTC
Found at i:48244411 original size:15 final size:15
Alignment explanation
Indices: 48244391--48244424 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48244381 TTTTTTCCCT
*
48244391 TTTTCTTTCTTTTTC
1 TTTTCTTTCTTTCTC
48244406 TTTTCTTTCTTTCTC
1 TTTTCTTTCTTTCTC
48244421 TTTT
1 TTTT
48244425 TTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTCTTTCTC
Found at i:48244414 original size:19 final size:19
Alignment explanation
Indices: 48244392--48244428 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48244382 TTTTTCCCTT
48244392 TTTCTTTCT-TTTTCTTTTC
1 TTTCTTTCTCTTTT-TTTTC
48244411 TTTCTTTCTCTTTTTTTT
1 TTTCTTTCTCTTTTTTTT
48244429 TTGAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTCTCTTTTTTTTC
Found at i:48249059 original size:3 final size:3
Alignment explanation
Indices: 48249051--48249084 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
48249041 ATATGTAGGT
48249051 ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
48249085 CAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:48249578 original size:21 final size:21
Alignment explanation
Indices: 48249548--48249624 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
48249538 AATCTTATCT
* *
48249548 TCTAATATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
48249569 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
48249590 TCTAAGATTACATA-ATCATA
1 TCTAAGATTGCATATATCATA
*
48249610 TCTAAGATTGTATAT
1 TCTAAGATTGCATAT
48249625 CCTCGAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 18 0.36
21 32 0.64
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:48264434 original size:5 final size:5
Alignment explanation
Indices: 48264424--48264469 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
48264414 GGTTATGTTT
48264424 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
48264470 ATGTATAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:48265387 original size:19 final size:19
Alignment explanation
Indices: 48265363--48265437 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
48265353 TTATGTGTGA
48265363 ATATGTGAATTGTGAATTG
1 ATATGTGAATTGTGAATTG
*
48265382 ATATGTGAATTG-GAAATCG
1 ATATGTGAATTGTG-AATTG
* *
48265401 AGATATGAGATT-TGAA--G
1 ATATGTGA-ATTGTGAATTG
48265418 ATATGTGAATATGTGAATTG
1 ATATGTGAAT-TGTGAATTG
48265438 TGTATTGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.18
18 5 0.11
19 24 0.55
20 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.27, T:0.36
Consensus pattern (19 bp):
ATATGTGAATTGTGAATTG
Found at i:48265732 original size:41 final size:37
Alignment explanation
Indices: 48265685--48265784 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 37
48265675 TCAACCTTGA
48265685 GTCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-AC--TTACTTCGGATAG
* ** ** * *
48265725 ATTCGATGAGGTACTGGGTACCAACTTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
*
48265763 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
48265785 CTTTATTGCT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 16 0.35
38 11 0.24
40 2 0.04
41 17 0.37
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
Found at i:48267846 original size:33 final size:33
Alignment explanation
Indices: 48267795--48268030 Score: 124
Period size: 33 Copynumber: 6.7 Consensus size: 33
48267785 TTATCCGTTA
*
48267795 TCGGTGGATTCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
**
48267829 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* * * *
48267871 ACGGTAGAATCAACACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
** *
48267905 TCAAGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* *
48267946 ACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
48267980 TCGGGGAATCAACACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
48268007 TGGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
48268031 CCGTTCACAT
Statistics
Matches: 157, Mismatches: 26, Indels: 45
0.69 0.11 0.20
Matches are distributed among these distances:
27 23 0.15
32 2 0.01
33 54 0.34
34 15 0.10
36 4 0.03
37 4 0.03
38 1 0.01
39 6 0.04
40 1 0.01
41 3 0.02
42 28 0.18
43 16 0.10
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:48267934 original size:76 final size:75
Alignment explanation
Indices: 48267808--48268007 Score: 310
Period size: 75 Copynumber: 2.7 Consensus size: 75
48267798 GTGGATTCAG
48267808 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATAC
1 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT-AAAAATAC
48267873 GGTAGAATCAA
65 GGTAGAATCAA
* ** * *
48267884 CACTTAGCAACCACCAATGAATCAAGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACG
* * *
48267949 GTGGGATCAG
66 GTAGAATCAA
*
48267959 CACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
1 CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
48268008 GGGGGAATCA
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
75 59 0.53
76 53 0.47
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.21
Consensus pattern (75 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACG
GTAGAATCAA
Found at i:48271235 original size:15 final size:17
Alignment explanation
Indices: 48271205--48271238 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
48271195 GCTTGTTAGC
48271205 TTAAGTTAAGTTTATTA
1 TTAAGTTAAGTTTATTA
48271222 TTAA-TTAA-TTTATTA
1 TTAAGTTAAGTTTATTA
48271237 TT
1 TT
48271239 CTTTTATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 4 0.24
17 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTAAGTTAAGTTTATTA
Found at i:48275621 original size:23 final size:23
Alignment explanation
Indices: 48275595--48275638 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48275585 ACTAGATTTT
48275595 TCCTAAATATTATCACAAAATAA
1 TCCTAAATATTATCACAAAATAA
*
48275618 TCCTAAATATTATCACTAAAT
1 TCCTAAATATTATCACAAAAT
48275639 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (23 bp):
TCCTAAATATTATCACAAAATAA
Found at i:48275638 original size:13 final size:13
Alignment explanation
Indices: 48275597--48275638 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 13
48275587 TAGATTTTTC
48275597 CTAAATATTATCA
1 CTAAATATTATCA
*
48275610 C-AAA-ATAATC-
1 CTAAATATTATCA
48275620 CTAAATATTATCA
1 CTAAATATTATCA
48275633 CTAAAT
1 CTAAAT
48275639 TATTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 1 0.04
11 8 0.33
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:48288096 original size:90 final size:90
Alignment explanation
Indices: 48287972--48288141 Score: 313
Period size: 90 Copynumber: 1.9 Consensus size: 90
48287962 TAATTTGATT
48287972 AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
1 AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
*
48288037 TGTGGATAGAGAGATCCAAGTTACC
66 GGTGGATAGAGAGATCCAAGTTACC
*
48288062 AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
1 AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
*
48288127 GGTGGATGGAGAGAT
66 GGTGGATAGAGAGAT
48288142 GATATATCAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (90 bp):
AAAACATAGTTAAATAAGTAAATTAAAGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
GGTGGATAGAGAGATCCAAGTTACC
Found at i:48289569 original size:18 final size:17
Alignment explanation
Indices: 48289518--48289570 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
48289508 TTCTCGTGAA
48289518 AAATCAAAA-TAAAATTG
1 AAAT-AAAAGTAAAATTG
*
48289535 AAATAAAAGTTACAATTG
1 AAATAAAAG-TAAAATTG
48289553 AAAGTAAAAGTAAAATTG
1 AAA-TAAAAGTAAAATTG
48289571 TAACACCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 17 0.55
19 6 0.19
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (17 bp):
AAATAAAAGTAAAATTG
Found at i:48294286 original size:62 final size:63
Alignment explanation
Indices: 48294185--48294305 Score: 176
Period size: 62 Copynumber: 1.9 Consensus size: 63
48294175 CCCACATGGA
***
48294185 CTGGACACACGCCCATGTCTCTGGCTTGTGTAACTCTAATTC-CAAACAGTGAGTTACACGGC
1 CTGGACACACGCCCATGTCTCTGGCCCATGTAACTCTAATTCACAAACAGTGAGTTACACGGC
48294247 CTGGACACACGCCCATGTC-CTTGGCCCATGTAAAC-CTAATTCACAAACAGTGAGTTACA
1 CTGGACACACGCCCATGTCTC-TGGCCCATGT-AACTCTAATTCACAAACAGTGAGTTACA
48294306 TAGCCTGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 1 0.02
62 33 0.62
63 19 0.36
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (63 bp):
CTGGACACACGCCCATGTCTCTGGCCCATGTAACTCTAATTCACAAACAGTGAGTTACACGGC
Found at i:48299415 original size:13 final size:13
Alignment explanation
Indices: 48299397--48299422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48299387 ATATCTCATC
48299397 TTTAGAAAAGAGA
1 TTTAGAAAAGAGA
48299410 TTTAGAAAAGAGA
1 TTTAGAAAAGAGA
48299423 GAGCTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TTTAGAAAAGAGA
Found at i:48304733 original size:13 final size:13
Alignment explanation
Indices: 48304715--48304745 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
48304705 CACTCAATCG
48304715 GTTAATGTATCAT
1 GTTAATGTATCAT
48304728 GTTAATGTATCAT
1 GTTAATGTATCAT
48304741 GTTAA
1 GTTAA
48304746 AAAATAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (13 bp):
GTTAATGTATCAT
Found at i:48304793 original size:24 final size:24
Alignment explanation
Indices: 48304765--48304819 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
48304755 TAGACTAATT
48304765 GGTTAATGTATCATGTTAACAATC
1 GGTTAATGTATCATGTTAACAATC
*
48304789 GGTTAATGTATCATGTTAGCAATC
1 GGTTAATGTATCATGTTAACAATC
48304813 GGTTAAT
1 GGTTAAT
48304820 CAAAACAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (24 bp):
GGTTAATGTATCATGTTAACAATC
Found at i:48305154 original size:10 final size:10
Alignment explanation
Indices: 48305139--48305163 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48305129 CTAATAGAGA
48305139 TTGTTTATTT
1 TTGTTTATTT
48305149 TTGTTTATTT
1 TTGTTTATTT
48305159 TTGTT
1 TTGTT
48305164 AATTGCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (10 bp):
TTGTTTATTT
Found at i:48305677 original size:18 final size:18
Alignment explanation
Indices: 48305649--48305690 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
48305639 TTGATTTTTT
*
48305649 AAAT-TAATTTTATTT-A
1 AAATATAATTTTTTTTAA
48305665 AAAT-TAATTTTTTTTAA
1 AAATATAATTTTTTTTAA
48305682 AAATATAAT
1 AAATATAAT
48305691 ACACTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.61
17 5 0.22
18 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATATAATTTTTTTTAA
Found at i:48305685 original size:17 final size:16
Alignment explanation
Indices: 48305649--48305683 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48305639 TTGATTTTTT
48305649 AAATTAATTTTATTTA
1 AAATTAATTTTATTTA
*
48305665 AAATTAATTTTTTTTA
1 AAATTAATTTTATTTA
48305681 AAA
1 AAA
48305684 ATATAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AAATTAATTTTATTTA
Found at i:48313968 original size:17 final size:16
Alignment explanation
Indices: 48313941--48313974 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
48313931 CACTTTTGAG
*
48313941 CATATATCACATTACA
1 CATATATCACATAACA
48313957 CATATAATCACATAACA
1 CATAT-ATCACATAACA
48313974 C
1 C
48313975 TTAAGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
CATATATCACATAACA
Found at i:48313982 original size:39 final size:39
Alignment explanation
Indices: 48313939--48314114 Score: 237
Period size: 39 Copynumber: 4.5 Consensus size: 39
48313929 TCCACTTTTG
* *
48313939 AGCATATATCACATTACACATATAATCACATAACACTT-A
1 AGCATATATCACAATACTCATATAATCACATAACA-TTCA
* *
48313978 AGCATATATCACAATACTCATATAATTACATAACGTTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* * *
48314017 AGCACATATCGCAATACTCATATGATCACATAACATTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
**
48314056 AGCATATATCGTAATACTCATATAATCACATAACATTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* *
48314095 AGCATATGTCGCAATACTCA
1 AGCATATATCACAATACTCA
48314115 AAAACATGTT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
38 2 0.02
39 120 0.98
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (39 bp):
AGCATATATCACAATACTCATATAATCACATAACATTCA
Found at i:48330766 original size:3 final size:3
Alignment explanation
Indices: 48330752--48330805 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
48330742 TATTTAATAC
*
48330752 TAT TAA TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48330799 TAT TAT T
1 TAT TAT T
48330806 TATTCGGTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:48333873 original size:45 final size:43
Alignment explanation
Indices: 48333822--48333991 Score: 145
Period size: 45 Copynumber: 4.0 Consensus size: 43
48333812 ACGATTTTCG
*
48333822 ATATGTGTTTTCGTGTAAGACCACGTCTGGGAC-GATGGCATCAAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCATC--T
* * * *
48333867 ATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCATC-T
* *
48333911 AT-T-TGA-TTCGTGTAAGACC-CTGTCCGGGACAGTGGCATCG
1 ATATGTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGGCATCT
* ** *
48333951 ATATGAGATAGCATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCAT
48333992 TGTTCGATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 6 0.06
43 25 0.25
44 4 0.04
45 36 0.36
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCATCT
Found at i:48337243 original size:13 final size:12
Alignment explanation
Indices: 48337213--48337243 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
48337203 TTTCTTAAAC
48337213 TTTAAAAAAGTA
1 TTTAAAAAAGTA
48337225 TTTAAAAAAGTA
1 TTTAAAAAAGTA
48337237 TTGTAAA
1 TT-TAAA
48337244 TATGTTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (12 bp):
TTTAAAAAAGTA
Found at i:48338907 original size:19 final size:19
Alignment explanation
Indices: 48338883--48338929 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
48338873 AACGTCTCTT
*
48338883 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
48338902 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
48338921 TATGCATTA
1 TTTGCATTA
48338930 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:48340199 original size:17 final size:18
Alignment explanation
Indices: 48340177--48340213 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48340167 TTATTCTTTT
48340177 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
48340194 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
48340212 AT
1 AT
48340214 ATTGTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:48340922 original size:1 final size:1
Alignment explanation
Indices: 48340918--48341071 Score: 65
Period size: 1 Copynumber: 154.0 Consensus size: 1
48340908 AAAAAAATTC
* * ** * * * * *
48340918 AAAAAATAAAAAAAATAAAAAAAATCAAAAATAAAAAAAAACAAAAACAAAAATAAAAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*** * ** * * * * * * * *
48340983 AAGTCAAAAATAGGAGAAAAAGAAAAAAAGAAAAAAGAAAAGAAAAAGAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
48341048 GAAAAAGAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
48341072 GGAAAGGTCA
Statistics
Matches: 104, Mismatches: 49, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 104 1.00
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (1 bp):
A
Found at i:48340923 original size:9 final size:9
Alignment explanation
Indices: 48340907--48340984 Score: 88
Period size: 9 Copynumber: 8.4 Consensus size: 9
48340897 TCAGACTCAA
48340907 AAAAAAAAT
1 AAAAAAAAT
**
48340916 TCAAAAAAT
1 AAAAAAAAT
48340925 AAAAAAAAT
1 AAAAAAAAT
48340934 AAAAAAAAT
1 AAAAAAAAT
48340943 CAAAAATAAA-
1 -AAAAA-AAAT
48340953 AAAAAACAA-
1 AAAAAA-AAT
48340962 AAACAAAAAT
1 AAA-AAAAAT
48340972 AAAAAAAAT
1 AAAAAAAAT
48340981 AAAA
1 AAAA
48340985 GTCAAAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
8 1 0.02
9 45 0.75
10 11 0.18
11 3 0.05
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:48340937 original size:16 final size:15
Alignment explanation
Indices: 48340905--48340984 Score: 88
Period size: 16 Copynumber: 5.1 Consensus size: 15
48340895 GTTCAGACTC
*
48340905 AAAAAAAAAATTCAAA
1 AAAAAAAAAAAT-AAA
48340921 AAATAAAAAAAATAAA
1 AAA-AAAAAAAATAAA
*
48340937 AAAAATCAAAAATAAA
1 AAAAA-AAAAAATAAA
*
48340953 AAAAAACAAAAACAAA
1 AAAAAA-AAAAATAAA
*
48340969 AATAAAAAAAATAAA
1 AAAAAAAAAAATAAA
48340984 A
1 A
48340985 GTCAAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
15 11 0.20
16 36 0.65
17 8 0.15
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAATAAA
Found at i:48340940 original size:12 final size:12
Alignment explanation
Indices: 48340925--48341072 Score: 102
Period size: 12 Copynumber: 11.8 Consensus size: 12
48340915 TTCAAAAAAT
*
48340925 AAAAAAAATAAA
1 AAAAAAAAGAAA
48340937 AAAAATCAAA-AATA
1 AAAAA--AAAGAA-A
*
48340951 AAAAAAAACAAA
1 AAAAAAAAGAAA
48340963 AACAAAAATA-AAA
1 AA-AAAAA-AGAAA
*
48340976 AAAATAAAAGTCAA
1 AAAA-AAAAG-AAA
* **
48340990 AAATAGGAGAAAA
1 AAAAAAAAG-AAA
48341003 AGAAAAAAAGAAA
1 A-AAAAAAAGAAA
*
48341016 AAAGAAAAGAAA
1 AAAAAAAAGAAA
*
48341028 AAGAAAAAGAAA
1 AAAAAAAAGAAA
*
48341040 AAGAAAAAGAAA
1 AAAAAAAAGAAA
*
48341052 AAGAAAAAGAAA
1 AAAAAAAAGAAA
*
48341064 AAGAAAAAG
1 AAAAAAAAG
48341073 GAAAGGTCAA
Statistics
Matches: 114, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
12 67 0.59
13 27 0.24
14 20 0.18
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.05
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:48340953 original size:22 final size:21
Alignment explanation
Indices: 48340905--48340994 Score: 90
Period size: 22 Copynumber: 4.0 Consensus size: 21
48340895 GTTCAGACTC
*
48340905 AAAAAAAAAATTCAAAAAATAAAAA
1 AAAAAAAAAAATC-AAAAAT---AA
48340930 AAATAAAAAAAATCAAAAATAA
1 AAA-AAAAAAAATCAAAAATAA
*
48340952 AAAAAAACAAAAACAAAAATAA
1 AAAAAAA-AAAATCAAAAATAA
*
48340974 AAAAAATAAAAGTCAAAAATA
1 AAAAAA-AAAAATCAAAAATA
48340995 GGAGAAAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
21 4 0.07
22 35 0.60
23 1 0.02
25 9 0.16
26 9 0.16
ACGTcount: A:0.82, C:0.06, G:0.01, T:0.11
Consensus pattern (21 bp):
AAAAAAAAAAATCAAAAATAA
Found at i:48340992 original size:38 final size:37
Alignment explanation
Indices: 48340928--48341053 Score: 128
Period size: 38 Copynumber: 3.3 Consensus size: 37
48340918 AAAAAATAAA
* * *
48340928 AAAAATAAAAAAAATCAAAAATAAAAAAAAACAAAAAC
1 AAAAATAAAAAAAAT-AAAAGTAAAAAAAAAGAAAAAG
**
48340966 AAAAATAAAAAAAATAAAAGTCAAAAATAGGAGAAAAAG
1 AAAAATAAAAAAAATAAAAGT-AAAAA-AAAAGAAAAAG
* *
48341005 AAAAA-AAGAAAAAAGAAAAGAAAAAGAAAAAGAAAAAG
1 AAAAATAA-AAAAAATAAAAGTAAAA-AAAAAGAAAAAG
*
48341043 AAAAAGAAAAA
1 AAAAATAAAAA
48341054 GAAAAAGAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
37 5 0.07
38 43 0.58
39 26 0.35
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.06
Consensus pattern (37 bp):
AAAAATAAAAAAAATAAAAGTAAAAAAAAAGAAAAAG
Found at i:48341003 original size:47 final size:45
Alignment explanation
Indices: 48340919--48341017 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 45
48340909 AAAAAATTCA
48340919 AAAAATAAAAAAAATAAAAAAAATCAAAAATAAAAAAA-AACAAAAAC
1 AAAAATAAAAAAAAT--AAAAAATCAAAAATAAAAAAAGAA-AAAAAC
* *
48340966 AAAAATAAAAAAAAT-AAAAGTCAAAAATAGGAGAAAAAGAAAAAAAG
1 AAAAATAAAAAAAATAAAAAATCAAAAATA--A-AAAAAGAAAAAAAC
48341013 AAAAA
1 AAAAA
48341018 AGAAAAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
44 13 0.28
46 1 0.02
47 30 0.65
48 2 0.04
ACGTcount: A:0.82, C:0.04, G:0.06, T:0.08
Consensus pattern (45 bp):
AAAAATAAAAAAAATAAAAAATCAAAAATAAAAAAAGAAAAAAAC
Found at i:48341008 original size:6 final size:6
Alignment explanation
Indices: 48340997--48341072 Score: 118
Period size: 6 Copynumber: 12.3 Consensus size: 6
48340987 CAAAAATAGG
48340997 AGAAAA AGAAAAAA AGAAAA A-AGAAA AGAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AG--AAAA AGAAAA AGA-AAA AGAAAA AGAAAA AGAAAA AGAAAA
48341047 AGAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA AGAAAA AG
48341073 GAAAGGTCAA
Statistics
Matches: 66, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
5 1 0.02
6 58 0.88
7 1 0.02
8 6 0.09
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:48341941 original size:26 final size:25
Alignment explanation
Indices: 48341910--48341961 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
48341900 AAAAAAACTT
48341910 AAAAAAATGAATGAAAAAATGAAAAATG
1 AAAAAAA--AATGAAAAAAT-AAAAATG
*
48341938 AAAAAAAAATGAAAAAGTAAAAAT
1 AAAAAAAAATGAAAAAATAAAAAT
48341962 AGAGAGGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 10 0.43
28 7 0.30
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (25 bp):
AAAAAAAAATGAAAAAATAAAAATG
Found at i:48341944 original size:18 final size:19
Alignment explanation
Indices: 48341912--48341953 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
48341902 AAAAACTTAA
*
48341912 AAAAATGAATGAAAAAATG
1 AAAAATGAATAAAAAAATG
48341931 AAAAATGAA-AAAAAAATG
1 AAAAATGAATAAAAAAATG
48341949 AAAAA
1 AAAAA
48341954 GTAAAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAATGAATAAAAAAATG
Found at i:48343318 original size:88 final size:88
Alignment explanation
Indices: 48343165--48343977 Score: 1376
Period size: 88 Copynumber: 9.2 Consensus size: 88
48343155 AACAGATCAG
*
48343165 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
48343230 CTCTTGATTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
48343253 TGAGGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
48343318 CTCTCGATTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
48343341 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACTGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
48343406 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
48343429 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* * *
48343494 CCCTCGTTTGT-AGCGGAGCTGGT
66 CTCTCGGTTGTGA-TGGAGCTGGT
** * **
48343517 CAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
48343582 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
48343605 TGAAGACAACAGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
48343670 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
48343693 TGAAGACAATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
48343758 CTCTCGGTTATGATGGAGTTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
48343781 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
48343846 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
48343869 TGAAGACAATAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
48343934 CTCTCGGTTGTGATGGAGCTGAT
66 CTCTCGGTTGTGATGGAGCTGGT
*
48343957 TGAAGACAAAAGACCTTGCCT
1 TGAAGACAAAAGATCTTGCCT
48343978 CTCTCGGTTG
Statistics
Matches: 682, Mismatches: 41, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
87 1 0.00
88 680 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:48344019 original size:44 final size:44
Alignment explanation
Indices: 48343211--48344021 Score: 347
Period size: 44 Copynumber: 18.5 Consensus size: 44
48343201 GAAGCAGGTC
* * *
48343211 GAAGAC-ACAAACCTTGCCTCTCTTGATTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * * ** * * *
48343254 GAGGACAAAAGATCTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTT
* *
48343299 GAAGAC-ACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * ** * *
48343342 GAAGACAAAAGATCTTGCCT-TC-CTGCAT-TGACTGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTT
*
48343387 GAAGAC-ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * * * * * *
48343430 GAAGACAAAAGATCTTGCCT-TC-CTGTAT-TGACAACGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTCGGT-TGTG---ATGGAGCTGGTT
* * * * *
48343475 GAAGAC-ACAAACCTTGCCTCCCTCGTTTGT-AGCGGAGCTGGTC
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTT
* * * * ** * * *
48343518 AAAGATAGCAGATCTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTT
*
48343563 GAAGAC-ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * ** * * *
48343606 GAAGACAACAGATCTTG-CTTTC-CTGCAT-TGACAGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTT
* *
48343651 GAAGAC-ACAAACCTTGTCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * ** * * *
48343694 GAAGACAATAGATCTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTT
* * *
48343739 GAAGAC-ACAAACCTTGCCTCTCTCGGTTATGATGGAGTTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * ** * * *
48343782 GAAGACAAAAGATCTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTT
*
48343827 GAAGAC-ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * * ** * * *
48343870 GAAGACAATAGATCTTGCCTTTCT-GCAT-TGACAGCGAAGCAGGTC
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGA-TG-G-AGCTGGTT
* *
48343915 GAAGAC-ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGATT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
*
48343958 GAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
* * * *
48344002 AAAGATAGCAGATCTTGCCT
1 GAAGACAACAGACCTTGCCT
48344022 TCCCGTACTA
Statistics
Matches: 556, Mismatches: 148, Indels: 127
0.67 0.18 0.15
Matches are distributed among these distances:
42 30 0.05
43 139 0.25
44 224 0.40
45 133 0.24
46 30 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (44 bp):
GAAGACAACAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
Found at i:48344064 original size:132 final size:131
Alignment explanation
Indices: 48343299--48344054 Score: 434
Period size: 132 Copynumber: 5.7 Consensus size: 131
48343289 GAAGCAGGTC
* * * *
48343299 GAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTC
1 GAAGACAAAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAACAGATCTTGCCTTC
* * * * *
48343364 CTGCATTGACTGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
66 CCGCACTAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGAT
48343429 T
131 T
* * * * * ** * *
48343430 GAAGACAAAAGATCTTGCCT-TC-CTGTAT-TGACAACGAAGCAGGTCGAAGAC-ACAAACCTTG
1 GAAGACAAAA-ACCTTGCCTCTCTCGGT-TGTG---ATGGAGCTGGTTAAAGACAACAGATCTTG
* ** *** * * * * * * ** *
48343491 CC-TCCCTCGTTTGTAGCGGAGCTGGTCAAAGATAGCAGATCTTGCCT-TC-CTGCAT-TGACAG
61 CCTTCCCGCACTAACAGCGAAGCAGGTCGAAGACA-CAAACCTTGCCTCTCTC-GGTTGTGA-TG
* * *
48343552 CGAAGCAGGTC
123 -G-AGCTGATT
* * *
48343563 GAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCTTTC
1 GAAGACAAAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAACAGATCTTGCCTTC
* * * * *
48343628 CTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTGTGATGGAGCTGGT
66 CCGCACTAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGAT
48343693 T
131 T
* * ** * * ** * *
48343694 GAAGACAATAGATCTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTCGAAGAC-ACAAACCTTG
1 GAAGACAA-AAACCTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTTAAAGACAACAGATCTTG
* ** ** ** * * * **
48343755 CCTCTCTCG-GTTATGATG-G-AGTTGGTTGAAGACAAAAGATCTTGCCT-TC-CTGCAT-TGAC
61 CCT-TCCCGCACTAACA-GCGAAGCAGGTCGAAGACACAA-ACCTTGCCTCTCTC-GGTTGTGA-
* * * *
48343814 AGCGAAGCAGGTC
121 TG-G-AGCTGATT
* * * *
48343827 GAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAATAGATCTTGCCTTT
1 GAAGACAAAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAACAGATCTTGCCTTC
* * *
48343892 CTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGAT
66 CCGCACTAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGAT
48343957 T
131 T
* *
48343958 GAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGATAGCAGATCTTGCCTT
1 GAAGACAAAA-ACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAACAGATCTTGCCTT
* *
48344023 CCCGTACTAACGGCGAAGC-GGATCGAAGACAC
65 CCCGCACTAACAGCGAAGCAGG-TCGAAGACAC
48344055 TAGTCTTGCC
Statistics
Matches: 458, Mismatches: 125, Indels: 83
0.69 0.19 0.12
Matches are distributed among these distances:
130 16 0.03
131 120 0.26
132 193 0.42
133 112 0.24
134 17 0.04
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (131 bp):
GAAGACAAAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAACAGATCTTGCCTTC
CCGCACTAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGAT
T
Found at i:48344064 original size:264 final size:255
Alignment explanation
Indices: 48343165--48344087 Score: 1071
Period size: 264 Copynumber: 3.5 Consensus size: 255
48343155 AACAGATCAG
* **
48343165 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCC-GGTTTGA-AG-G-AGCAGGTCGAAGACACAAACCTTGCCT
** * * * * *
48343230 CTCTTGATTGTGATG-GAGCTGGTTGAGGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGC
62 -TCCCG--TAT-AAGCGAGC-GGTCGAAGAC-ACAGATCTTGCCTTCCTGCATTGACAGCGAAGC
*
48343294 AGGTCGAAGACACAAACCTTGCCTCTCTCGATTGTGATGGAGCTGGTTGAAGACAAAAGATCTTG
121 AGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTG
* *
48343359 CCTTCCTGCATTGACTGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAG
186 CCTTTCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAG
48343424 CTGGT
251 CTGGT
* *
48343429 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCGGT-TTG--AA-GGAGCAGGTCGAAGACACAAACCTTGCCT
* * * * *
48343494 CCCTCGTTTGTAGCGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
62 TCC-CGTAT-AAGC-GAGC-GGTCGAAGACA-CAGATCTTGCCTTCCTGCATTGACAGCGAAGCA
*
48343559 GGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTG-
122 GGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGC
*
48343623 CTTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGTCTCTCTCGGTTGTGATGGAG
187 CTTT-CTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAG
48343688 CTGGT
251 CTGGT
* **
48343693 TGAAGACAATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCC-GGTTTGA-AG-G-AGCAGGTCGAAGACACAAACCTTGCCT
* * * * *
48343758 CTCTCGGTTATGATG-GAGTTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGC
62 -TC-CCG-TAT-AAGCGAG-CGGTCGAAGAC-ACAGATCTTGCCTTCCTGCATTGACAGCGAAGC
*
48343822 AGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAATAGATCTTG
121 AGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTG
48343887 CCTTTCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAG
186 CCTTTCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAG
*
48343952 CTGAT
251 CTGGT
* * * ** * * *
48343957 TGAAGACAAAAGACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 TGAAGACAAAAGATCTTGCCT-TC-CGGTT-TGAAGGAGCAGGTCGAAGACA-CAAACCTTGCCT
* * *
48344022 TCCCGTACTAACGGCGAAGCGGATCGAAGACACTAG-TCTTGCCTTCCTGTACTGATAGCGAAGC
62 TCCCGTA-TAA--GCG-AGCGG-TCGAAGACAC-AGATCTTGCCTTCCTGCATTGACAGCGAAGC
48344086 AG
121 AG
48344088 ATCTAAGAAA
Statistics
Matches: 571, Mismatches: 58, Indels: 60
0.83 0.08 0.09
Matches are distributed among these distances:
261 3 0.01
262 9 0.02
263 20 0.04
264 504 0.88
265 24 0.04
266 11 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (255 bp):
TGAAGACAAAAGATCTTGCCTTCCGGTTTGAAGGAGCAGGTCGAAGACACAAACCTTGCCTTCCC
GTATAAGCGAGCGGTCGAAGACACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGA
CACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTTCTGCA
TTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
Found at i:48344158 original size:45 final size:47
Alignment explanation
Indices: 48344105--48344289 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 47
48344095 AAACCATAGT
*
48344105 TTGCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTGCTTCC-C-
1 TTGCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTACTTCCACA
* * * * *
48344150 TGGCAGTTAAAGATATTGAAGCTACAATAGCGGATCTTATTTTCCTAGCG
1 TTGCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTA-CTTCC-A-CA
** * *
48344200 TTGCAGTGGAACAGATTGAAGCTATAACAGCGGATCTTACTTCCCTAACA
1 TTGCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTACTT-CC--ACA
* * *
48344250 TTGCAATTAAAAAGATTGAAGCTACAACAGCAGATCTTAC
1 TTGCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTAC
48344290 CCCCTTGACG
Statistics
Matches: 112, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
45 35 0.31
46 4 0.04
49 3 0.03
50 69 0.62
51 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (47 bp):
TTGCAGTTAAAGAGATTGAAGCTACAACAGCGGATCTTACTTCCACA
Found at i:48344304 original size:100 final size:95
Alignment explanation
Indices: 48344117--48344310 Score: 219
Period size: 100 Copynumber: 2.0 Consensus size: 95
48344107 GCAGTTAAAG
* * * * * *
48344117 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAGATATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCA
***
48344182 GATCTTATTTTCCTAGCGTTGCAGTGGAAC
66 GATCTTATCCCCCTAGCGTTGCAGTGGAAC
* *
48344212 AGATTGAAGCTATAACAGCGGATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTT-CC---C-TGGCAATTAAAAAGATTGAAGCTACAA
*
48344277 CAGCAGATCTTA-CCCCCTTGACGTTGCAGTGGAA
61 CAGCAGATCTTATCCCCCTAG-CGTTGCAGTGGAA
48344311 TAGAATAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
95 28 0.35
96 2 0.02
99 5 0.06
100 46 0.57
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (95 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCA
GATCTTATCCCCCTAGCGTTGCAGTGGAAC
Found at i:48345699 original size:3 final size:3
Alignment explanation
Indices: 48345691--48345725 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
48345681 ATTAACAAAT
* *
48345691 TTA TTA TTA CTA TCA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48345726 TGTTCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Done.