Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 73 of 85
Found at i:25322974 original size:89 final size:89
Alignment explanation
Indices: 25322881--25323177 Score: 264
Period size: 89 Copynumber: 3.4 Consensus size: 89
25322871 ATTTTTTATT
* * * *
25322881 TGCTTCACTACCAGTATAGGAAGACAATATCTGTTATTTTCAGTCTGCTCTACTGCAAACTCAGG
1 TGCTTCACTGCCAGTATAGGAAGACAAGATCTGTAATTTTCAGTCTGCTCCACTGCAAACTCAGG
**
25322946 GAGGCGAGGCTTGTGTCTTCGATC
66 GAGGTAAGGCTTGTGTCTTCGATC
* ** ** ** * *
25322970 TGCTTCACTGCC-GATACAGGAAGACAAGATCTACAATTTTCAACCTATTCCACTG-ATACTGAG
1 TGCTTCACTGCCAG-TATAGGAAGACAAGATCTGTAATTTTCAGTCTGCTCCACTGCAAACTCAG
* ** *
25323033 GGAGATAAGGC-T-ACTCTTTGATC
65 GGAGGTAAGGCTTGTGTCTTCGATC
* ** * *
25323056 TGCTTCACTGCCAGTATAGGAAGACAAGATCCGCTGCTTTT-AGTCTGCTCCGCTGCAAACTCAA
1 TGCTTCACTGCCAGTATAGGAAGACAAGATCTG-TAATTTTCAGTCTGCTCCACTGCAAACTCAG
* *
25323120 GGAAGTTAGGCTTGTGTCTTCGATC
65 GGAGGTAAGGCTTGTGTCTTCGATC
* * *
25323145 TGTTTCACCGTC-GATATAGGAAGACAAGATCTG
1 TGCTTCACTGCCAG-TATAGGAAGACAAGATCTG
25323178 CTGCTTTTAG
Statistics
Matches: 158, Mismatches: 43, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
86 45 0.28
87 19 0.12
88 17 0.11
89 77 0.49
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (89 bp):
TGCTTCACTGCCAGTATAGGAAGACAAGATCTGTAATTTTCAGTCTGCTCCACTGCAAACTCAGG
GAGGTAAGGCTTGTGTCTTCGATC
Found at i:25323425 original size:15 final size:15
Alignment explanation
Indices: 25323385--25323425 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
25323375 TAACTAGGTG
25323385 TGTATGAATGATATT
1 TGTATGAATGATATT
*
25323400 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
25323416 TGTATGAATG
1 TGTATGAATG
25323426 TAGAATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:25324622 original size:60 final size:60
Alignment explanation
Indices: 25324488--25324690 Score: 243
Period size: 59 Copynumber: 3.4 Consensus size: 60
25324478 GTCTCAAGGT
* * * ** *
25324488 GCCCTTTGCGGGTTTTCACCTTGGCCTCTCCTT-TTTT-TTTTCTTTTTTTGACTCAAAGC
1 GCCCTTTGCAGGTTTTCACCTTGGTCTTTTTTTCTTTTCTTTTC-TTTTTTGACCCAAAGC
* * *
25324547 GCTCTTTGCAAGTTTTCACCTTGGTCTTTTTTTCTTTTCTTTTCTTTTTTGACCCAATGC
1 GCCCTTTGCAGGTTTTCACCTTGGTCTTTTTTTCTTTTCTTTTCTTTTTTGACCCAAAGC
* * *
25324607 GCCCTTTGTAGGTTTTCACCTTGGT-TTTTTTTCTTTTCTTTTTTTTTTTGACCCAAGGC
1 GCCCTTTGCAGGTTTTCACCTTGGTCTTTTTTTCTTTTCTTTTCTTTTTTGACCCAAAGC
*
25324666 GCCCTTTG-TGGATTTTCACCTTGGT
1 GCCCTTTGCAGG-TTTTCACCTTGGT
25324691 TTCTTCCTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
58 2 0.02
59 79 0.63
60 40 0.32
61 5 0.04
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (60 bp):
GCCCTTTGCAGGTTTTCACCTTGGTCTTTTTTTCTTTTCTTTTCTTTTTTGACCCAAAGC
Found at i:25329436 original size:3 final size:3
Alignment explanation
Indices: 25329422--25329499 Score: 54
Period size: 3 Copynumber: 26.3 Consensus size: 3
25329412 GAATGAGTAG
* * *
25329422 ATA ATT ATA ATA ATA ATA A-A GTA AGTA ATA ATA A-A TATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA -ATA ATA ATA
* * * *
25329467 ATA ATA GTA ATA GTA GTA GTA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25329500 ATAAAAGGGA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 4 0.07
3 52 0.87
4 4 0.07
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25329964 original size:8 final size:8
Alignment explanation
Indices: 25329919--25329957 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
25329909 TATGCAGCTG
25329919 AAAAAAAT
1 AAAAAAAT
25329927 AAAAAAAT
1 AAAAAAAT
25329935 AAAAAAAT
1 AAAAAAAT
25329943 AAAAAAAT
1 AAAAAAAT
25329951 AAAAAAA
1 AAAAAAA
25329958 AATAAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:25329978 original size:24 final size:22
Alignment explanation
Indices: 25329918--25329978 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
25329908 ATATGCAGCT
*
25329918 GAAAAAAATAAAAAAATAAAAAAA
1 GAAAAAAA-AAAAAAA-AATAAAA
*
25329942 TAAAAAAATAAAAAAAAATAAAA
1 GAAAAAAA-AAAAAAAAATAAAA
* *
25329965 GAAAGAAAGAAAAA
1 GAAAAAAAAAAAAA
25329979 GAGACCCCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 5 0.16
23 12 0.38
24 15 0.47
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.08
Consensus pattern (22 bp):
GAAAAAAAAAAAAAAAATAAAA
Found at i:25334057 original size:21 final size:21
Alignment explanation
Indices: 25334031--25334077 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
25334021 GTGGCTTAAA
25334031 CGTAAAGGAATG-TCTTTGTGG
1 CGTAAAGGAATGCT-TTTGTGG
**
25334052 CGTAAAGGGGTGCTTTTGTGG
1 CGTAAAGGAATGCTTTTGTGG
25334073 CGTAA
1 CGTAA
25334078 TCGTAAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (21 bp):
CGTAAAGGAATGCTTTTGTGG
Found at i:25334098 original size:27 final size:27
Alignment explanation
Indices: 25334068--25334130 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
25334058 GGGGTGCTTT
*
25334068 TGTGGCGTAATCGTAAAGG-AATGCCTC
1 TGTGGCATAATCGT-AAGGAAATGCCTC
*
25334095 TGTGGCATAATTGTAAGGAAATGCCT-
1 TGTGGCATAATCGTAAGGAAATGCCTC
25334121 TAGTGGCATA
1 T-GTGGCATA
25334131 GTATGAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
TGTGGCATAATCGTAAGGAAATGCCTC
Found at i:25335887 original size:32 final size:31
Alignment explanation
Indices: 25335846--25335914 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
25335836 TTTTTTAGAA
25335846 TTTAAAAAATTA-AAAAAATAAATAAAAATATT
1 TTTAAAAAA-TAGAAAAAATAAA-AAAAATATT
**
25335878 TTTAAAAAATAGAAATTATAAAAAAAATATT
1 TTTAAAAAATAGAAAAAATAAAAAAAATATT
25335909 TTTAAA
1 TTTAAA
25335915 TTTTTTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 17 0.50
32 17 0.50
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (31 bp):
TTTAAAAAATAGAAAAAATAAAAAAAATATT
Found at i:25338431 original size:79 final size:79
Alignment explanation
Indices: 25338300--25338455 Score: 312
Period size: 79 Copynumber: 2.0 Consensus size: 79
25338290 CCTCTTCTCT
25338300 AATGTGGACTGATGTCGAAGGAAAAACGATCTCATGTAGACTAGTCGATGATTGAACTATACCTG
1 AATGTGGACTGATGTCGAAGGAAAAACGATCTCATGTAGACTAGTCGATGATTGAACTATACCTG
25338365 CATAAAACAATGTG
66 CATAAAACAATGTG
25338379 AATGTGGACTGATGTCGAAGGAAAAACGATCTCATGTAGACTAGTCGATGATTGAACTATACCTG
1 AATGTGGACTGATGTCGAAGGAAAAACGATCTCATGTAGACTAGTCGATGATTGAACTATACCTG
25338444 CATAAAACAATG
66 CATAAAACAATG
25338456 ATCAACTTCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGTGGACTGATGTCGAAGGAAAAACGATCTCATGTAGACTAGTCGATGATTGAACTATACCTG
CATAAAACAATGTG
Found at i:25340044 original size:62 final size:62
Alignment explanation
Indices: 25339947--25340076 Score: 260
Period size: 62 Copynumber: 2.1 Consensus size: 62
25339937 ATCGAAAAAG
25339947 AAAATTATATCCAGTAAGTTAGGACACAATGTCTTGAACTCCCGATGCACGAATGAATGCCA
1 AAAATTATATCCAGTAAGTTAGGACACAATGTCTTGAACTCCCGATGCACGAATGAATGCCA
25340009 AAAATTATATCCAGTAAGTTAGGACACAATGTCTTGAACTCCCGATGCACGAATGAATGCCA
1 AAAATTATATCCAGTAAGTTAGGACACAATGTCTTGAACTCCCGATGCACGAATGAATGCCA
25340071 AAAATT
1 AAAATT
25340077 TACTTATTTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 68 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (62 bp):
AAAATTATATCCAGTAAGTTAGGACACAATGTCTTGAACTCCCGATGCACGAATGAATGCCA
Found at i:25340627 original size:10 final size:9
Alignment explanation
Indices: 25340608--25340677 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 9
25340598 ATATATAAAG
25340608 ATAAATAAAA
1 ATAAA-AAAA
25340618 ATATAAAAAA
1 ATA-AAAAAA
*
25340628 ATAAAAATTA
1 ATAAAAA-AA
*
25340638 ATAGTTAAAAA
1 ATA--AAAAAA
25340649 ATAAAATAAA
1 ATAAAA-AAA
25340659 ATAAAATAAA
1 ATAAAA-AAA
25340669 ATAACAAAA
1 ATAA-AAAA
25340678 GGGATTAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.12
10 33 0.66
11 8 0.16
12 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:25340631 original size:20 final size:19
Alignment explanation
Indices: 25340598--25340677 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 19
25340588 GTACACACAT
* *
25340598 ATATATAAAGATAAATAAAA
1 ATATAAAAAAATAAA-AAAA
*
25340618 ATATAAAAAAATAAAAATTA
1 ATATAAAAAAATAAAAA-AA
*
25340638 ATAGTTAAAAAATAAAATAAA
1 ATA-TAAAAAAATAAAA-AAA
25340659 ATA-AAATAAAATAACAAAA
1 ATATAAA-AAAATAA-AAAA
25340678 GGGATTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 4 0.08
20 26 0.53
21 18 0.37
22 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.23
Consensus pattern (19 bp):
ATATAAAAAAATAAAAAAA
Found at i:25340656 original size:5 final size:5
Alignment explanation
Indices: 25340646--25340672 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25340636 TAATAGTTAA
25340646 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
25340673 CAAAAGGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:25340661 original size:21 final size:20
Alignment explanation
Indices: 25340610--25340672 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
25340600 ATATAAAGAT
25340610 AAATAAAAATATAAAAAAATA
1 AAAT-AAAATATAAAAAAATA
* *
25340631 AAA-ATTAATAGTTAAAAAATA
1 AAATA-AAATA-TAAAAAAATA
25340652 AAATAAAATA-AAATAAAATA
1 AAATAAAATATAAA-AAAATA
25340672 A
1 A
25340673 CAAAAGGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
19 3 0.09
20 11 0.32
21 19 0.56
22 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAATATAAAAAAATA
Found at i:25341893 original size:9 final size:9
Alignment explanation
Indices: 25341876--25341912 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25341866 TGAGTTTTCG
25341876 AATTCGAAT
1 AATTCGAAT
*
25341885 AACTCGAAT
1 AATTCGAAT
25341894 AATTCGAAT
1 AATTCGAAT
25341903 AATTCGAAT
1 AATTCGAAT
25341912 A
1 A
25341913 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25343552 original size:89 final size:89
Alignment explanation
Indices: 25343376--25344076 Score: 1000
Period size: 89 Copynumber: 7.9 Consensus size: 89
25343366 ATTGTTTTTT
* * * *
25343376 GATCTGCTTCGCTGCCAGTACAGGGAGGCATGATCTGGTATCTTCAGTGTGCTCCGCTG-CA-AA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
* *
25343439 CTCAGAAAGGCAAGGCTGGTGTCTTC
66 C-AAG-GAGGCAAGGCTGGTGTCTTC
* * **
25343465 GATCT-CTTTGCTGCCAGTATAGGAAGGCATGATCTGCTATCTTCAGTCTAGCTCCGCTGTTAGT
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCT-GCTCCGCTGCCAGT
25343529 ACAAGGAGGCAAGGCTGGTGTCTTC
65 ACAAGGAGGCAAGGCTGGTGTCTTC
** * * * *
25343554 GATCTGCTTTACTGCCAGTACAGGAAGGCAAGATATGCTATCTTTAGTTTGCTCCGCTGCCAGTA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
*
25343619 TAA-GAGGGCAAGGCTGGTGTCTTC
66 CAAGGA-GGCAAGGCTGGTGTCTTC
* *
25343643 GATCTGCTTCACTGCCAGTACAAGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
* *
25343708 CAGGGAGGCAAGGCTAGTGTCTTC
66 CAAGGAGGCAAGGCTGGTGTCTTC
* *
25343732 GATCTGCTTCGCTGCCAGTACAGGAAGGCGTGACCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
*
25343797 CAGGGAGGCAAGGCTGGTGTCTTC
66 CAAGGAGGCAAGGCTGGTGTCTTC
* * * *
25343821 GATCTGCTTCGCTACCAGTACAGGGAGGCATGATCTGGTATCTTCAGTGTGCTCCGCTGCCAGTA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
25343886 C-AGGAAGGCAAGGCTGGTGTCTTC
66 CAAGG-AGGCAAGGCTGGTGTCTTC
* * *
25343910 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGTTCTGCTGTCAGTA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
25343975 C-AGAGAGGCAAGGCTGGTGTCTTC
66 CAAG-GAGGCAAGGCTGGTGTCTTC
* *
25343999 GATCTGCTTCGCTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
1 GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
*
25344064 CAGGGAGGCAAGG
66 CAAGGAGGCAAGG
25344077 TTGAAATCTT
Statistics
Matches: 551, Mismatches: 52, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
88 43 0.08
89 461 0.84
90 45 0.08
91 2 0.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (89 bp):
GATCTGCTTCGCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGCTCCGCTGCCAGTA
CAAGGAGGCAAGGCTGGTGTCTTC
Found at i:25343629 original size:45 final size:45
Alignment explanation
Indices: 25343474--25344075 Score: 359
Period size: 45 Copynumber: 13.5 Consensus size: 45
25343464 CGATCTCTTT
* * * *
25343474 GCTGCCAGTATAGGAAGGCATGATCTGCTATCTTCAGTCTAGCTCC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCT-GCTCC
** * * * * * **
25343520 GCTGTTAGTACAAGGAGGCAAG-GCTGGTGTC-TTCGATCTGCTTT
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAG-TCTGCTCC
* * * *
25343564 ACTGCCAGTACAGGAAGGCAAGATATGCTATCTTTAGTTTGCTCC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
* * * * * * *
25343609 GCTGCCAGTATAAGAGGGCAAG-GCTGGTGTC-TTCGATCTGCTTC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAG-TCTGCTCC
* * *
25343653 ACTGCCAGTACAAGAAGGCATGATCTGCTATCTTCAGTCTGCTCC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
* * * * * *
25343698 GCTGCCAGTACAGGGAGGCAAG-GCTAG-TGTC-TTCGATCTGCTTC
1 GCTGCCAGTACAAGAAGGCAAGATCT-GCTATCTTTAG-TCTGCTCC
* ** * *
25343742 GCTGCCAGTACAGGAAGGCGTGACCTGCTATCTTCAGTCTGCTCC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
* * * * * * *
25343787 GCTGCCAGTACAGGGAGGCAAG-GCTGGTGTC-TTCGATCTGCTTC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAG-TCTGCTCC
* * * * * * *
25343831 GCTACCAGTACAGGGAGGCATGATCTGGTATCTTCAGTGTGCTCC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
* * * * * *
25343876 GCTGCCAGTACAGGAAGGCAAG-GCTGGTGTC-TTCGATCTGCTTC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAG-TCTGCTCC
* * * * *
25343920 GCTGCCAGTACAGGAAGGCATGATCTGCTATCTTCAGTCTGTTCT
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
* * * * * *
25343965 GCTGTCAGTAC-AGAGAGGCAAG-GCTGGTGTC-TTCGATCTGCTTC
1 GCTGCCAGTACAAGA-AGGCAAGATCTGCTATCTTTAG-TCTGCTCC
* * *
25344009 GCTGCCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTGCTCC
1 GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
* *
25344054 GCTGCCAGTACAGGGAGGCAAG
1 GCTGCCAGTACAAGAAGGCAAG
25344076 GTTGAAATCT
Statistics
Matches: 413, Mismatches: 121, Indels: 45
0.71 0.21 0.08
Matches are distributed among these distances:
43 11 0.03
44 179 0.43
45 194 0.47
46 29 0.07
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (45 bp):
GCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCC
Found at i:25348954 original size:15 final size:15
Alignment explanation
Indices: 25348934--25348962 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25348924 TGTGGAGATA
25348934 TAAAAATTTAAAATT
1 TAAAAATTTAAAATT
25348949 TAAAAATTTAAAAT
1 TAAAAATTTAAAAT
25348963 ACAAAACATG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAATTTAAAATT
Found at i:25348968 original size:15 final size:15
Alignment explanation
Indices: 25348935--25348968 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25348925 GTGGAGATAT
**
25348935 AAAAATTTAAAATTT
1 AAAAATTTAAAATAC
25348950 AAAAATTTAAAATAC
1 AAAAATTTAAAATAC
25348965 AAAA
1 AAAA
25348969 CATGATGAAA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTTAAAATAC
Found at i:25350266 original size:3 final size:3
Alignment explanation
Indices: 25350251--25350326 Score: 66
Period size: 3 Copynumber: 25.7 Consensus size: 3
25350241 AAAAGGTATT
* ** * **
25350251 TAA TAA TAT TAA TAA TAA TGC TAA TAA TAA TAA TAA TAA TAG TTT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
25350299 TAA TAA TATA TAA GAA TAA -AA -AA TAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
25350327 GCACATATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
2 4 0.07
3 51 0.88
4 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:25350390 original size:16 final size:17
Alignment explanation
Indices: 25350356--25350423 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 17
25350346 ACACACATAT
*
25350356 ATATAAAGATAAATGAAA
1 ATATAAATATAAAT-AAA
25350374 ATATAAATA-AAATAAA
1 ATATAAATATAAATAAA
* *
25350390 A-ATTAATAGTTAA-AAA
1 ATATAAATA-TAAATAAA
25350406 A-ATAAATA-AAATAAA
1 ATATAAATATAAATAAA
25350421 ATA
1 ATA
25350424 AAAAAATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.05
15 10 0.24
16 15 0.37
17 6 0.15
18 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
ATATAAATATAAATAAA
Found at i:25352799 original size:39 final size:40
Alignment explanation
Indices: 25352755--25352851 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 40
25352745 CACTTTTAAA
*
25352755 CATATATCACAATACTCATATAATCACAT-AACATTCAAG
1 CATATATCACAATACTCAGATAATCACATAAACATTCAAG
*
25352794 CATATATCACTAGT-CTCAGATAATCACATAAACATTCAAG
1 CATATATCAC-AATACTCAGATAATCACATAAACATTCAAG
25352834 CATATATCACAATACTCA
1 CATATATCACAATACTCA
25352852 AAAACATGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 26 0.50
40 26 0.50
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (40 bp):
CATATATCACAATACTCAGATAATCACATAAACATTCAAG
Found at i:25366807 original size:39 final size:43
Alignment explanation
Indices: 25366762--25366867 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 43
25366752 TTTCCTTATG
* *
25366762 CTATTACACCTCTATTCCATTCA-A-CCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCATAGCCAAACAAAAGAATTAC
25366802 C-ATTACGCCTCTATTCCATTTCATTCAGCCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCA-TTCA-T-AGCCAAACAAAAGAATTAC
25366847 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
25366868 ACGCATCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
39 16 0.28
40 5 0.09
43 1 0.02
44 12 0.21
45 6 0.11
46 17 0.30
ACGTcount: A:0.34, C:0.31, G:0.05, T:0.30
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTCATAGCCAAACAAAAGAATTAC
Found at i:25366842 original size:44 final size:46
Alignment explanation
Indices: 25366779--25366867 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
25366769 ACCTCTATTC
*
25366779 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTT
*
25366823 CATTCAGCCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
25366868 ACGCATCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
45 4 0.10
46 19 0.46
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.28
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTT
Found at i:25366870 original size:16 final size:16
Alignment explanation
Indices: 25366849--25366901 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
25366839 AGAATTACCT
25366849 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
25366865 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
25366881 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
25366897 ATTAC
1 ATTAC
25366902 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:25369950 original size:39 final size:39
Alignment explanation
Indices: 25369896--25370070 Score: 160
Period size: 39 Copynumber: 4.5 Consensus size: 39
25369886 TATATTCACT
* *
25369896 TTTAAGCATATATCACATTACACATTTAATCACATAAAA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
* *
25369935 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAAAA
* *
25369974 TTCAAGCATATATCAC-A-ACAC-TCATAATCACATAACA
1 TTTAAGCATATATCACAATACACAT-ATAATCACATAAAA
* * * ** * * **
25370011 TTCT-AGCATACATCAAAATGCTTAAATAACCACATAACG
1 TT-TAAGCATATATCACAATACACATATAATCACATAAAA
*
25370050 TTTAAGCATATATCATAATAC
1 TTTAAGCATATATCACAATAC
25370071 TCAAAAACAT
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
36 1 0.01
37 29 0.26
38 3 0.03
39 79 0.71
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAAAA
Found at i:25370025 original size:22 final size:21
Alignment explanation
Indices: 25369960--25370025 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
25369950 CAATACTCAT
*
25369960 ATAATCACATAACATTCAAGC
1 ATAATCACATAACATTCTAGC
25369981 ATATATCAC--AACA--CT--C
1 ATA-ATCACATAACATTCTAGC
25369997 ATAATCACATAACATTCTAGC
1 ATAATCACATAACATTCTAGC
25370018 ATACATCA
1 ATA-ATCA
25370026 AAATGCTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 15
0.69 0.02 0.29
Matches are distributed among these distances:
15 5 0.14
16 4 0.11
17 4 0.11
18 1 0.03
19 2 0.06
20 4 0.11
21 7 0.19
22 9 0.25
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (21 bp):
ATAATCACATAACATTCTAGC
Found at i:25370045 original size:76 final size:76
Alignment explanation
Indices: 25369899--25370073 Score: 192
Period size: 76 Copynumber: 2.3 Consensus size: 76
25369889 ATTCACTTTT
* * * *
25369899 AAGCATATATCACATTACACAT-TTAATCACATAAAATTTAAGCATATATCACAATACTCATATA
1 AAGCATATATCACA--ACAC-TCATAATCACATAAAATTTAAGCATACATCAAAATACTCAAATA
*
25369963 ATCACATAACATTC
63 ACCACATAACATTC
* * *
25369977 AAGCATATATCACAACACTCATAATCACATAACATTCT-AGCATACATCAAAATGCTTAAATAAC
1 AAGCATATATCACAACACTCATAATCACATAAAATT-TAAGCATACATCAAAATACTCAAATAAC
* *
25370041 CACATAACGTTT
65 CACATAACATTC
* *
25370053 AAGCATATATCATAATACTCA
1 AAGCATATATCACAACACTCA
25370074 AAAACATGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 67 0.81
77 1 0.01
78 14 0.17
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.29
Consensus pattern (76 bp):
AAGCATATATCACAACACTCATAATCACATAAAATTTAAGCATACATCAAAATACTCAAATAACC
ACATAACATTC
Found at i:25372268 original size:30 final size:30
Alignment explanation
Indices: 25372202--25372363 Score: 159
Period size: 30 Copynumber: 5.4 Consensus size: 30
25372192 ACCATCGAAC
25372202 TATGAAAAGGGATAGCTTCGGCTATC-AAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* *
25372231 CATGAAAAGGGATGGCTTCGGCTATCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* * * * * *
25372261 TATGAAAAGTGA-GGGTGAT-GACTATCGAAC
1 TATGAAAAGGGATAGCT--TCGGCTATCAAAT
* * *
25372291 TATGAAATGTGATAGCTACGGCTATCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
*
25372321 TATGAAAAGGGATAGCTTCGACTATCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* *
25372351 TACGAAAAAGGAT
1 TATGAAAAGGGAT
25372364 GTGTCAACCA
Statistics
Matches: 107, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
29 27 0.25
30 77 0.72
31 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTTCGGCTATCAAAT
Found at i:25372306 original size:89 final size:89
Alignment explanation
Indices: 25372110--25372358 Score: 324
Period size: 89 Copynumber: 2.8 Consensus size: 89
25372100 CCATCATCAA
* * * * *
25372110 CGAA-TATGAAAAGGGATAGCTTCGGCTATCAGTTATGAAAAAGGATGG-TGACGACCATC-GAT
1 CGAACTATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGCT-TCGACTATCAAAT
* *
25372172 AATGAAAAGTGATGGTGATGACCAT
65 TATGAAAAGTGAGGGTGATGACCAT
* *
25372197 CGAACTATGAAAAGGGATAGCTTCGGCTATCAATCATGAAAAGGGATGGCTTCGGCTATCAAATT
1 CGAACTATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGCTTCGACTATCAAATT
*
25372262 ATGAAAAGTGAGGGTGATGACTAT
66 ATGAAAAGTGAGGGTGATGACCAT
* * * *
25372286 CGAACTATGAAATGTGATAGCTACGGCTATCAAATTATGAAAAGGGATAGCTTCGACTATCAAAT
1 CGAACTATGAAAAGGGATAGCTTCGGCTATC-AATTATGAAAAGGGATGGCTTCGACTATCAAAT
*
25372351 TACGAAAA
65 TATGAAAA
25372359 AGGATGTGTC
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
87 4 0.03
88 47 0.33
89 53 0.38
90 37 0.26
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (89 bp):
CGAACTATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGCTTCGACTATCAAATT
ATGAAAAGTGAGGGTGATGACCAT
Found at i:25372344 original size:60 final size:59
Alignment explanation
Indices: 25372115--25372348 Score: 165
Period size: 59 Copynumber: 4.0 Consensus size: 59
25372105 ATCAACGAAT
* * * * * * * *
25372115 ATGAAAAGGGATAGCTTCGGCTATC-AGTTATGAAAAAGGAT-GGTGACGACCATCGATA
1 ATGAAAAGGGATAGCTACGGCTATCAAATTATGAAAAGGGATAGCT-TCGACTATCAATC
* * * * * * * *
25372173 ATGAAAAGTGAT-GGTGATGACCATCGAACTATGAAAAGGGATAGCTTCGGCTATCAATC
1 ATGAAAAGGGATAGCT-ACGGCTATCAAATTATGAAAAGGGATAGCTTCGACTATCAATC
* * * * *
25372232 ATGAAAAGGGATGGCTTCGGCTATCAAATTATGAAAAGTGA-GGGTGAT-GACTATCGAA-C
1 ATGAAAAGGGATAGCTACGGCTATCAAATTATGAAAAGGGATAGCT--TCGACTATC-AATC
* *
25372291 TATGAAATGTGATAGCTACGGCTATCAAATTATGAAAAGGGATAGCTTCGACTATCAA
1 -ATGAAAAGGGATAGCTACGGCTATCAAATTATGAAAAGGGATAGCTTCGACTATCAA
25372349 ATTACGAAAA
Statistics
Matches: 132, Mismatches: 34, Indels: 19
0.71 0.18 0.10
Matches are distributed among these distances:
57 2 0.02
58 18 0.14
59 60 0.45
60 50 0.38
61 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTACGGCTATCAAATTATGAAAAGGGATAGCTTCGACTATCAATC
Found at i:25376309 original size:17 final size:18
Alignment explanation
Indices: 25376276--25376311 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25376266 CATGTTTTCA
25376276 GCCCGTGTGGATCCACAC
1 GCCCGTGTGGATCCACAC
25376294 GCCCGTGTGG-TCCACAC
1 GCCCGTGTGGATCCACAC
25376311 G
1 G
25376312 ACCCAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (18 bp):
GCCCGTGTGGATCCACAC
Found at i:25382085 original size:7 final size:7
Alignment explanation
Indices: 25382073--25382099 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25382063 TAATTTGAAA
25382073 AGAAAAG
1 AGAAAAG
25382080 AGAAAAG
1 AGAAAAG
25382087 AGAAAAG
1 AGAAAAG
25382094 AGAAAA
1 AGAAAA
25382100 AGTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:25382277 original size:15 final size:16
Alignment explanation
Indices: 25382229--25382278 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
25382219 AAATCAAAAT
*
25382229 AAGAGAAAAGAAATGA
1 AAGAGAAAAGAAAGGA
25382245 AA-AGAAAA-AAAGGAA
1 AAGAGAAAAGAAAGG-A
25382260 AAGAGAAAAGAAA-GA
1 AAGAGAAAAGAAAGGA
25382275 AAGA
1 AAGA
25382279 ATAGATAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.13
15 14 0.47
16 9 0.30
17 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (16 bp):
AAGAGAAAAGAAAGGA
Found at i:25388508 original size:32 final size:32
Alignment explanation
Indices: 25388471--25388552 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
25388461 TTGAAATTAG
* *
25388471 TTTGTTGGATTTTGAAATTATTATGTCTTAAA
1 TTTGTTGGATATTGAAATTATCATGTCTTAAA
* * * *
25388503 TTTGTTAGATATTGAATTTATCATGTTTTAAG
1 TTTGTTGGATATTGAAATTATCATGTCTTAAA
*
25388535 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
25388553 GATTGACAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATCATGTCTTAAA
Found at i:25391030 original size:25 final size:25
Alignment explanation
Indices: 25391002--25391051 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
25390992 ATGTTGAAGA
* * *
25391002 ATATGAGCATTAAAGCTAGTCCATC
1 ATATGAGAAGTAAAACTAGTCCATC
*
25391027 ATATTAGAAGTAAAACTAGTCCATC
1 ATATGAGAAGTAAAACTAGTCCATC
25391052 CAATCAGGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (25 bp):
ATATGAGAAGTAAAACTAGTCCATC
Found at i:25392333 original size:46 final size:46
Alignment explanation
Indices: 25392189--25392336 Score: 163
Period size: 46 Copynumber: 3.2 Consensus size: 46
25392179 TTTGGTCTGA
* * * * **
25392189 AACATATGCAGGAACTCAGAACCTAATCACGTATTCTTGAGTTCAT
1 AACATATGCAAGAGCTCAGAACCTAATCATGTATTCTTGAGTCCGC
* * * * *
25392235 AACATAAGAAAGAGCTCAGAACCTAATCCTGTATTCTCGAGTCTGC
1 AACATATGCAAGAGCTCAGAACCTAATCATGTATTCTTGAGTCCGC
* *
25392281 AACATATGCAAGAGCT-AGAAATCTATTCATGTATTCTTGAGTCCGC
1 AACATATGCAAGAGCTCAG-AACCTAATCATGTATTCTTGAGTCCGC
25392327 AACATATGCA
1 AACATATGCA
25392337 GGAATTCAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
45 2 0.02
46 81 0.98
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (46 bp):
AACATATGCAAGAGCTCAGAACCTAATCATGTATTCTTGAGTCCGC
Found at i:25398816 original size:30 final size:30
Alignment explanation
Indices: 25398780--25398839 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
25398770 TAGTCAGATG
25398780 AATGGAGTATGTGCTACTATGGGCTTCCGA
1 AATGGAGTATGTGCTACTATGGGCTTCCGA
25398810 AATGGAGTATGTGCTACTATGGGCTTCCGA
1 AATGGAGTATGTGCTACTATGGGCTTCCGA
25398840 TAAAATATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
AATGGAGTATGTGCTACTATGGGCTTCCGA
Found at i:25405480 original size:115 final size:115
Alignment explanation
Indices: 25405295--25405542 Score: 487
Period size: 115 Copynumber: 2.2 Consensus size: 115
25405285 CCCTCTTCAC
*
25405295 TAAAATTTAAATATCTCATTGTATAGAATTCAGACCATAATTATTTTTGTACAATTTTTCACAAT
1 TAAAATTCAAATATCTCATTGTATAGAATTCAGACCATAATTATTTTTGTACAATTTTTCACAAT
25405360 TTTCCAAATTTAGAATAGGGGATTCCGAAATCATTCTGACATTGTCTCAT
66 TTTCCAAATTTAGAATAGGGGATTCCGAAATCATTCTGACATTGTCTCAT
25405410 TAAAATTCAAATATCTCATTGTATAGAATTCAGACCATAATTATTTTTGTACAATTTTTCACAAT
1 TAAAATTCAAATATCTCATTGTATAGAATTCAGACCATAATTATTTTTGTACAATTTTTCACAAT
25405475 TTTCCAAATTTAGAATAGGGGATTCCGAAATCATTCTGACATTGTCTCAT
66 TTTCCAAATTTAGAATAGGGGATTCCGAAATCATTCTGACATTGTCTCAT
25405525 TAAAATTCAAATATCTCA
1 TAAAATTCAAATATCTCA
25405543 AAATATATAA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 132 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (115 bp):
TAAAATTCAAATATCTCATTGTATAGAATTCAGACCATAATTATTTTTGTACAATTTTTCACAAT
TTTCCAAATTTAGAATAGGGGATTCCGAAATCATTCTGACATTGTCTCAT
Found at i:25405950 original size:45 final size:45
Alignment explanation
Indices: 25405877--25406011 Score: 184
Period size: 45 Copynumber: 3.0 Consensus size: 45
25405867 CCGTTACACG
* * * ***
25405877 GTGG-ATCAGCACATAAC-ACCACCCTTATAATCAATTATATTTA
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCA
25405920 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCA
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCA
* *
25405965 GTGGAATCAGCACATAGCAACCAACTTTATAATCAATGATACTCA
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCA
25406010 GT
1 GT
25406012 ACATGTAGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 4 0.05
44 12 0.15
45 66 0.80
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCA
Found at i:25408850 original size:79 final size:80
Alignment explanation
Indices: 25408719--25408879 Score: 315
Period size: 79 Copynumber: 2.0 Consensus size: 80
25408709 AATTTTTGTT
25408719 TTCTTTCTTTTTCTTTGGTTTAATTATGTTTTCTTGTAAAATTAACTTAATAATATAAAATAAAC
1 TTCTTTCTTTTTCTTTGGTTTAATTATGTTTTCTTGTAAAATTAACTTAATAATATAAAATAAAC
25408784 TTAACA-TTCCACTA
66 TTAACATTTCCACTA
25408798 TTCTTTCTTTTTCTTTGGTTTAATTATGTTTTCTTGTAAAATTAACTTAATAATATAAAATAAAC
1 TTCTTTCTTTTTCTTTGGTTTAATTATGTTTTCTTGTAAAATTAACTTAATAATATAAAATAAAC
25408863 TTAACATTTCCACTA
66 TTAACATTTCCACTA
25408878 TT
1 TT
25408880 TTTTAGCTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 71 0.88
80 10 0.12
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.50
Consensus pattern (80 bp):
TTCTTTCTTTTTCTTTGGTTTAATTATGTTTTCTTGTAAAATTAACTTAATAATATAAAATAAAC
TTAACATTTCCACTA
Found at i:25411774 original size:31 final size:30
Alignment explanation
Indices: 25411720--25411777 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
25411710 TAAATACTCG
* *
25411720 AAATTTGAGGGATTAAAGTGTAAATATGAA
1 AAATTTGAAGGACTAAAGTGTAAATATGAA
25411750 AAATTTGAAGGACTAATAGTGTAAATAT
1 AAATTTGAAGGACTAA-AGTGTAAATAT
25411778 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.31
Consensus pattern (30 bp):
AAATTTGAAGGACTAAAGTGTAAATATGAA
Found at i:25415473 original size:28 final size:28
Alignment explanation
Indices: 25415415--25415485 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
25415405 AAGACGCCTC
25415415 TGTGGCAATCTCT-ATAAAGGACATCTA
1 TGTGGCAATCTCTGATAAAGGACATCTA
* * ** *
25415442 TGTGACAATCTCTGTTAAAGGATGTCTT
1 TGTGGCAATCTCTGATAAAGGACATCTA
25415470 TGTGGCGAATCTCTGA
1 TGTGGC-AATCTCTGA
25415486 AAGGAAAACT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 12 0.34
28 15 0.43
29 8 0.23
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (28 bp):
TGTGGCAATCTCTGATAAAGGACATCTA
Found at i:25415586 original size:28 final size:28
Alignment explanation
Indices: 25415520--25415620 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 28
25415510 TGAATAAGAA
*
25415520 TTGTGGCTATCTCTGTTAAAGAAAGTCT
1 TTGTGGCTATCTATGTTAAAGAAAGTCT
* *
25415548 TTATGG-AATCTATGTTAAAGGAAA-TGC-
1 TTGTGGCTATCTATGTTAAA-GAAAGT-CT
* * * *
25415575 TTGTGGCTATCTCTGTGAATGGAAAGCCT
1 TTGTGGCTATCTATGTTAA-AGAAAGTCT
* *
25415604 TTGTTGCTATCTCTGTT
1 TTGTGGCTATCTATGTT
25415621 CTAGGAAAAC
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
27 17 0.30
28 24 0.43
29 15 0.27
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.40
Consensus pattern (28 bp):
TTGTGGCTATCTATGTTAAAGAAAGTCT
Found at i:25417238 original size:12 final size:12
Alignment explanation
Indices: 25417221--25417248 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25417211 TTATTAAAAT
25417221 AATTAAAAACAA
1 AATTAAAAACAA
25417233 AATTAAAAACAA
1 AATTAAAAACAA
25417245 AATT
1 AATT
25417249 GAAAGCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
AATTAAAAACAA
Found at i:25418194 original size:50 final size:50
Alignment explanation
Indices: 25418088--25418278 Score: 168
Period size: 50 Copynumber: 3.7 Consensus size: 50
25418078 GAGGACGAGA
* *
25418088 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-TA--AGAGG
*
25418144 TCCCATGTAAGACCATGTCTAGGG-CATGGCGTTGGCACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCACCGAGATAAGAGG
*** * * * * **
25418194 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
* * * *
25418244 TCCCATGTAAGACCATATTTGGGATATGGTATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
25418279 AAGTACAGGA
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 68 0.61
52 2 0.02
53 4 0.04
55 1 0.01
56 31 0.28
57 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
Found at i:25419473 original size:29 final size:29
Alignment explanation
Indices: 25419440--25419499 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
25419430 TAGGGAAAAT
25419440 TTACAGATCTAAATTTTGAGTTTCTTAGC
1 TTACAGATCTAAATTTTGAGTTTCTTAGC
25419469 TTACAGATCTAAATTTTGAGTTTCTTAGC
1 TTACAGATCTAAATTTTGAGTTTCTTAGC
25419498 TT
1 TT
25419500 GAGTTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (29 bp):
TTACAGATCTAAATTTTGAGTTTCTTAGC
Found at i:25429740 original size:15 final size:14
Alignment explanation
Indices: 25429714--25429753 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
25429704 AAATTGTCAC
*
25429714 ATATCTTTTTTTTA
1 ATATTTTTTTTTTA
25429728 ATATTTATTTTTTTA
1 ATATTT-TTTTTTTA
25429743 ATATTTTTTTT
1 ATATTTTTTTT
25429754 ACTTTATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
ATATTTTTTTTTTA
Found at i:25430175 original size:2 final size:2
Alignment explanation
Indices: 25430168--25430194 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25430158 AAAAGTAAAA
25430168 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25430195 AACTCATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25430705 original size:17 final size:17
Alignment explanation
Indices: 25430671--25430717 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
25430661 ATTTTGAATT
25430671 AAATTTATTCAAAA-TTTA
1 AAATTT-TT-AAAATTTTA
25430689 AAATTTTTAAAATTTTA
1 AAATTTTTAAAATTTTA
25430706 AAA-TTTTAAAAT
1 AAATTTTTAAAAT
25430718 GTATTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.46
17 9 0.32
18 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTTAAAATTTTA
Found at i:25430706 original size:8 final size:8
Alignment explanation
Indices: 25430681--25430717 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
25430671 AAATTTATTC
25430681 AAAA-TTT
1 AAAATTTT
25430688 AAAATTTTT
1 AAAA-TTTT
25430697 AAAATTTT
1 AAAATTTT
25430705 AAAATTTT
1 AAAATTTT
25430713 AAAAT
1 AAAAT
25430718 GTATTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.14
8 17 0.61
9 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAAATTTT
Found at i:25431322 original size:15 final size:14
Alignment explanation
Indices: 25431296--25431335 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
25431286 AAATTGTCAC
*
25431296 ATATCTTTTTTTTA
1 ATATTTTTTTTTTA
25431310 ATATTTATTTTTTTA
1 ATATTT-TTTTTTTA
25431325 ATATTTTTTTT
1 ATATTTTTTTT
25431336 ACTTTATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
ATATTTTTTTTTTA
Found at i:25431505 original size:109 final size:110
Alignment explanation
Indices: 25431392--25431611 Score: 415
Period size: 109 Copynumber: 2.0 Consensus size: 110
25431382 AAAATTCTAT
*
25431392 TAACTATGTACTATATATTTTTTATATTTATAATACACTTTAAACTGAGGTGAATATAAGAAAAA
1 TAACTATGTACTAAATATTTTTTATATTTATAATACACTTTAAACTGAGGTGAATATAAGAAAAA
25431457 AATTTGTATAAGTAAAATTACTATAAATTTATAC-CATAATATTA
66 AATTTGTATAAGTAAAATTACTATAAATTTATACACATAATATTA
25431501 TAACTATGTACTAAATATTTTTTATATTTATAATACACTTTAAACTGAGGTGAATATAAGAAAAA
1 TAACTATGTACTAAATATTTTTTATATTTATAATACACTTTAAACTGAGGTGAATATAAGAAAAA
25431566 AATTTGTATAAGTAAAATTACTATAAATTTATACAACATAATATTA
66 AATTTGTATAAGTAAAATTACTATAAATTTATAC-ACATAATATTA
25431612 AAAAAAATAA
Statistics
Matches: 108, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
109 98 0.91
111 10 0.09
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (110 bp):
TAACTATGTACTAAATATTTTTTATATTTATAATACACTTTAAACTGAGGTGAATATAAGAAAAA
AATTTGTATAAGTAAAATTACTATAAATTTATACACATAATATTA
Found at i:25431866 original size:2 final size:2
Alignment explanation
Indices: 25431859--25431885 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25431849 AAAAGTAAAA
25431859 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25431886 AACTCATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25432396 original size:17 final size:17
Alignment explanation
Indices: 25432362--25432408 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
25432352 ATTTTGAATT
25432362 AAATTTATTCAAAA-TTTA
1 AAATTT-TT-AAAATTTTA
25432380 AAATTTTTAAAATTTTA
1 AAATTTTTAAAATTTTA
25432397 AAA-TTTTAAAAT
1 AAATTTTTAAAAT
25432409 GTATTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.46
17 9 0.32
18 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTTAAAATTTTA
Found at i:25432397 original size:8 final size:8
Alignment explanation
Indices: 25432372--25432408 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
25432362 AAATTTATTC
25432372 AAAA-TTT
1 AAAATTTT
25432379 AAAATTTTT
1 AAAA-TTTT
25432388 AAAATTTT
1 AAAATTTT
25432396 AAAATTTT
1 AAAATTTT
25432404 AAAAT
1 AAAAT
25432409 GTATTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.14
8 17 0.61
9 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAAATTTT
Found at i:25436396 original size:2 final size:2
Alignment explanation
Indices: 25436389--25436429 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
25436379 TCAATGAATC
*
25436389 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25436430 CCATGCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25437205 original size:2 final size:2
Alignment explanation
Indices: 25437198--25437236 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
25437188 TCAATGAATC
*
25437198 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25437237 CCATGCCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25437722 original size:807 final size:808
Alignment explanation
Indices: 25436167--25437783 Score: 3218
Period size: 807 Copynumber: 2.0 Consensus size: 808
25436157 TCATAAATAT
25436167 GAACTATGGATTAAATTGAATACTAGAAGTACTTAATTGATTTAAATTATCTATTTAGATCAAGA
1 GAACTATGGATTAAATTGAATACTAGAAGTACTTAATTGATTTAAATTATCTATTTAGATCAAGA
25436232 TAAACCATATTTAGACTTAAATTGAGGAAAAGCTAAAGCTTCAGATTAGTTCGACTATACTATTA
66 TAAACCATATTTAGACTTAAATTGAGGAAAAGCTAAAGCTTCAGATTAGTTCGACTATACTATTA
25436297 CCCCCTAATTATCAAGGTAAGTTCGTATAAACTATAATCATTTTAATATTGGCTAAATTGTCTAA
131 CCCCCTAATTATCAAGGTAAGTTCGTATAAACTATAATCATTTTAATATTGGCTAAATTGTCTAA
25436362 TTGTTATGTTGTTTTAATCAATGAATCTATATATATATATATATATGTATATATATATATATATA
196 TTGTTATGTTGTTTTAATCAATGAATCTATATATATATATATATATG-ATATATATATATATATA
25436427 TATCCATGCCATGATGAATTGATGGATAACGAGCCCCGGTTGAACCTTAAGAATTCTTAGGATAC
260 TATCCATGCCATGATGAATTGATGGATAACGAGCCCCGGTTGAACCTTAAGAATTCTTAGGATAC
25436492 AAATGACATGTCATTAGGGATTTTATGTTTCGGGTGCTGGTCTTGAATGTCCTATCTATGGTTGA
325 AAATGACATGTCATTAGGGATTTTATGTTTCGGGTGCTGGTCTTGAATGTCCTATCTATGGTTGA
25436557 GATCTTGCATTTGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCATATAGCTTACATTCCGA
390 GATCTTGCATTTGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCATATAGCTTACATTCCGA
25436622 CCCATAGTACGTGTAAGCAGGCCCATTTCACAGCTCGTGTGAGCATTGATGTAAAAGAAAGGTCA
455 CCCATAGTACGTGTAAGCAGGCCCATTTCACAGCTCGTGTGAGCATTGATGTAAAAGAAAGGTCA
25436687 CGGTTATATGTAAAGGCATACTATGTGTGAGCTTTCCCAAGTATCTGATGTATTCTAGATGGTTC
520 CGGTTATATGTAAAGGCATACTATGTGTGAGCTTTCCCAAGTATCTGATGTATTCTAGATGGTTC
25436752 AACAAGTAAGAAAAGGAATGGGATGATAAGTAAGTTAATAGAAATGTTCGTGATTTTATGAAAAG
585 AACAAGTAAGAAAAGGAATGGGATGATAAGTAAGTTAATAGAAATGTTCGTGATTTTATGAAAAG
25436817 GTTAATGCATATGTAATGTATCTTATGAAATCTACTTATGATGTAAATGAGCTTATATGTGATGT
650 GTTAATGCATATGTAATGTATCTTATGAAATCTACTTATGATGTAAATGAGCTTATATGTGATGT
25436882 TGATGAACCTACTAACATGTGAGCTTGATGATGCTTGAATAGGCTTATACTAATCTCATGGTATT
715 TGATGAACCTACTAACATGTGAGCTTGATGATGCTTGAATAGGCTTATACTAATCTCATGGTATT
25436947 GGTATTGGTTTATGCTTAATCTATGAATG
780 GGTATTGGTTTATGCTTAATCTATGAATG
25436976 GAACTATGGATTAAATTGAATACTAGAAGTACTTAATTGATTTAAATTATCTATTTAGATCAAGA
1 GAACTATGGATTAAATTGAATACTAGAAGTACTTAATTGATTTAAATTATCTATTTAGATCAAGA
25437041 TAAACCATATTTAGACTTAAATTGAGGAAAAGCTAAAGCTTCAGATTAGTTCGACTATACTATTA
66 TAAACCATATTTAGACTTAAATTGAGGAAAAGCTAAAGCTTCAGATTAGTTCGACTATACTATTA
25437106 CCCCCTAATTATCAAGGTAAGTTCGTATAAACTATAATCATTTTAATATTGGCTAAATTGTCTAA
131 CCCCCTAATTATCAAGGTAAGTTCGTATAAACTATAATCATTTTAATATTGGCTAAATTGTCTAA
25437171 TTGTTATGTTGTTTTAATCAATGAATCTATATATATATATATATATG-TATATATATATATATAT
196 TTGTTATGTTGTTTTAATCAATGAATCTATATATATATATATATATGATATATATATATATATAT
25437235 ATCCATGCCATGATGAATTGATGGATAACGAGCCCCGGTTGAACCTTAAGAATTCTTAGGATACA
261 ATCCATGCCATGATGAATTGATGGATAACGAGCCCCGGTTGAACCTTAAGAATTCTTAGGATACA
25437300 AATGACATGTCATTAGGGATTTTATGTTTCGGGTGCTGGTCTTGAATGTCCTATCTATGGTTGAG
326 AATGACATGTCATTAGGGATTTTATGTTTCGGGTGCTGGTCTTGAATGTCCTATCTATGGTTGAG
25437365 ATCTTGCATTTGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCATATAGCTTACATTCCGAC
391 ATCTTGCATTTGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCATATAGCTTACATTCCGAC
25437430 CCATAGTACGTGTAAGCAGGCCCATTTCACAGCTCGTGTGAGCATTGATGTAAAAGAAAGGTCAC
456 CCATAGTACGTGTAAGCAGGCCCATTTCACAGCTCGTGTGAGCATTGATGTAAAAGAAAGGTCAC
25437495 GGTTATATGTAAAGGCATACTATGTGTGAGCTTTCCCAAGTATCTGATGTATTCTAGATGGTTCA
521 GGTTATATGTAAAGGCATACTATGTGTGAGCTTTCCCAAGTATCTGATGTATTCTAGATGGTTCA
25437560 ACAAGTAAGAAAAGGAATGGGATGATAAGTAAGTTAATAGAAATGTTCGTGATTTTATGAAAAGG
586 ACAAGTAAGAAAAGGAATGGGATGATAAGTAAGTTAATAGAAATGTTCGTGATTTTATGAAAAGG
25437625 TTAATGCATATGTAATGTATCTTATGAAATCTACTTATGATGTAAATGAGCTTATATGTGATGTT
651 TTAATGCATATGTAATGTATCTTATGAAATCTACTTATGATGTAAATGAGCTTATATGTGATGTT
25437690 GATGAACCTACTAACATGTGAGCTTGATGATGCTTGAATAGGCTTATACTAATCTCATGGTATTG
716 GATGAACCTACTAACATGTGAGCTTGATGATGCTTGAATAGGCTTATACTAATCTCATGGTATTG
25437755 GTATTGGTTTATGCTTAATCTATGAATG
781 GTATTGGTTTATGCTTAATCTATGAATG
25437783 G
1 G
25437784 TGTTATTGAG
Statistics
Matches: 808, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
807 566 0.70
809 242 0.30
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (808 bp):
GAACTATGGATTAAATTGAATACTAGAAGTACTTAATTGATTTAAATTATCTATTTAGATCAAGA
TAAACCATATTTAGACTTAAATTGAGGAAAAGCTAAAGCTTCAGATTAGTTCGACTATACTATTA
CCCCCTAATTATCAAGGTAAGTTCGTATAAACTATAATCATTTTAATATTGGCTAAATTGTCTAA
TTGTTATGTTGTTTTAATCAATGAATCTATATATATATATATATATGATATATATATATATATAT
ATCCATGCCATGATGAATTGATGGATAACGAGCCCCGGTTGAACCTTAAGAATTCTTAGGATACA
AATGACATGTCATTAGGGATTTTATGTTTCGGGTGCTGGTCTTGAATGTCCTATCTATGGTTGAG
ATCTTGCATTTGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCATATAGCTTACATTCCGAC
CCATAGTACGTGTAAGCAGGCCCATTTCACAGCTCGTGTGAGCATTGATGTAAAAGAAAGGTCAC
GGTTATATGTAAAGGCATACTATGTGTGAGCTTTCCCAAGTATCTGATGTATTCTAGATGGTTCA
ACAAGTAAGAAAAGGAATGGGATGATAAGTAAGTTAATAGAAATGTTCGTGATTTTATGAAAAGG
TTAATGCATATGTAATGTATCTTATGAAATCTACTTATGATGTAAATGAGCTTATATGTGATGTT
GATGAACCTACTAACATGTGAGCTTGATGATGCTTGAATAGGCTTATACTAATCTCATGGTATTG
GTATTGGTTTATGCTTAATCTATGAATG
Found at i:25440035 original size:32 final size:32
Alignment explanation
Indices: 25439999--25440249 Score: 342
Period size: 32 Copynumber: 7.8 Consensus size: 32
25439989 ATATATTATG
* ***
25439999 TATTGTCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
*
25440031 TATTGTCGAATTGAATTGTATATGTATACGTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
*
25440063 TATTGCCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
25440095 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * ***
25440127 TATTGTCGAATTGAATTGAATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
25440159 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* *
25440191 TAATGCCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * *
25440223 TGTT-TCCAAATTGATTTGTATATGTAT
1 TATTGT-CGAATTGAATTGTATATGTAT
25440250 TTATATATTG
Statistics
Matches: 194, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
32 194 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (32 bp):
TATTGTCGAATTGAATTGTATATGTATACTTA
Found at i:25440499 original size:41 final size:43
Alignment explanation
Indices: 25440393--25440511 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
25440383 GAGTTGTAAT
25440393 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAA
1 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAA
** *
25440436 AACGTGTAAGACCATGTTTGGGACATTGGCATCG-TGT-ATG-A
1 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGA-GAA
* * * *
25440477 TTCGTATAAGACCCTGTCTGGGACAGTGGCATCGA
1 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGA
25440512 TATATGTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 30 0.46
42 3 0.05
43 32 0.49
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAA
Found at i:25450285 original size:86 final size:86
Alignment explanation
Indices: 25450116--25450277 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 86
25450106 CCAACAAGTG
* **
25450116 GTGGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAATG
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACA
25450181 AGTGGCAGTAACTACAAATAT
66 AGTGGCAGTAACTACAAATAT
* * ***
25450202 GTGGCTCGTCCACAAAACCCAGTGATAGTTTGTTTAATCTGTGAATATGTTGTGCACTCACAACA
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACA
25450267 AGTGGCAGTAA
66 AGTGGCAGTAA
25450278 TTGCAAATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACA
AGTGGCAGTAACTACAAATAT
Found at i:25451415 original size:15 final size:15
Alignment explanation
Indices: 25451390--25451424 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25451380 AACTCTATTT
*
25451390 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
25451404 TAATTAATATTAAGA
1 TAATTAATATTAAGA
25451419 TAATTA
1 TAATTA
25451425 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:25457815 original size:5 final size:5
Alignment explanation
Indices: 25457801--25457883 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
25457791 GCAACCTAAT
* * *
25457801 TTTTA TTTTTA TTTT- TGTT- TTTTG TTTTT TTATTA TTTTA TTTTA TTTT-
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
* * *
25457850 CTTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
25457884 ATTTATTACT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
4 9 0.14
5 41 0.64
6 11 0.17
7 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:25457844 original size:21 final size:21
Alignment explanation
Indices: 25457806--25457854 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
25457796 CTAATTTTTA
* *
25457806 TTTTTATTTTTGTTTTTTGTT
1 TTTTTATTTTTGTATTTTATT
25457827 TTTTTATTATTT-TATTTTATT
1 TTTTTATT-TTTGTATTTTATT
25457848 TTCTTTA
1 TT-TTTA
25457855 CTTTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (21 bp):
TTTTTATTTTTGTATTTTATT
Found at i:25457869 original size:12 final size:12
Alignment explanation
Indices: 25457852--25457898 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
25457842 TTTATTTTCT
25457852 TTACTTTATTTA
1 TTACTTTATTTA
25457864 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
25457877 TT-TTATTATTTA
1 TTACT-TTATTTA
25457889 TTAC-TTATTT
1 TTACTTTATTT
25457899 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:25458073 original size:22 final size:23
Alignment explanation
Indices: 25458045--25458108 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
25458035 GCCCAGAATG
* *
25458045 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCCAAACCACCCTTATC
25458067 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCCTTATC
*
25458089 CCTGCACCCAAGCACCACCC
1 CCTGCAGCCAA--ACCACCC
25458109 CTTAGCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 20 0.57
23 1 0.03
25 7 0.20
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (23 bp):
CCTGCAGCCAAACCACCCTTATC
Found at i:25465989 original size:30 final size:31
Alignment explanation
Indices: 25465950--25466009 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
25465940 NNNNNNNAGA
*
25465950 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
25465981 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
25466010 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:25466546 original size:19 final size:19
Alignment explanation
Indices: 25466522--25466558 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25466512 AATTTTATTT
25466522 TTTAAAAAAATATTAAAAA
1 TTTAAAAAAATATTAAAAA
* *
25466541 TTTAAAACATTATTAAAA
1 TTTAAAAAAATATTAAAA
25466559 TCATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAAAAATATTAAAAA
Found at i:25466665 original size:7 final size:7
Alignment explanation
Indices: 25466664--25466708 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
25466654 TTAAATTATA
25466664 AAAAATT
1 AAAAATT
25466671 AAAAATT
1 AAAAATT
25466678 AAAAATT
1 AAAAATT
25466685 AAAAA-T
1 AAAAATT
* *
25466691 ATATATT
1 AAAAATT
25466698 AAAAATT
1 AAAAATT
25466705 AAAA
1 AAAA
25466709 GAAAGCCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 4 0.12
7 29 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:25467140 original size:7 final size:7
Alignment explanation
Indices: 25467128--25467154 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25467118 TTTTTAAAAT
25467128 AATTTTA
1 AATTTTA
25467135 AATTTTA
1 AATTTTA
25467142 AATTTTA
1 AATTTTA
25467149 AATTTT
1 AATTTT
25467155 TTTATATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:25467183 original size:26 final size:24
Alignment explanation
Indices: 25467116--25467183 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
25467106 TTTTAGACTC
25467116 AATTTTTAAAATAATTTTAAATTTTA
1 AATTTTT--AATAATTTTAAATTTTA
* ** *
25467142 AATTTTAAATTTTTTTATATGTTTA
1 AATTTTTAATAATTTTAAAT-TTTA
25467167 TAATTTTTAATAATTTT
1 -AATTTTTAATAATTTT
25467184 TTAAATTGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 10 0.30
25 4 0.12
26 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (24 bp):
AATTTTTAATAATTTTAAATTTTA
Found at i:25467655 original size:6 final size:6
Alignment explanation
Indices: 25467644--25467672 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
25467634 AGGAAAGGGC
25467644 AGGGAG AGGGAG AGGGAG AGGGAG AGGGA
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGA
25467673 AAGAGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:25478510 original size:98 final size:96
Alignment explanation
Indices: 25478328--25478616 Score: 429
Period size: 98 Copynumber: 3.0 Consensus size: 96
25478318 TAAGTAAGGT
* * *
25478328 TTAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAA--TTTAAAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
* *
25478391 GTTTATGGTTTCTAAGGAAAAAATCAAATAAA
66 GTTTAGGGTTTTTAA-GAAAAAATCAAATAAA
*
25478423 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTTAGATTAAGGTTTAG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAA-TTAGATTAGGGTTTAG
* *
25478488 GGTTTAGGGTTTTTAAGTAAAAAATAAAATAAA
65 TGTTTAGGGTTTTTAAG-AAAAAATCAAATAAA
25478521 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
* * * *
25478586 ATTTAGGATTTTTATGGAAAAATCAAATAAA
66 GTTTAGGGTTTTTAAGAAAAAATCAAATAAA
25478617 GCTAGTTGTT
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
95 34 0.19
96 13 0.07
97 38 0.22
98 90 0.51
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (96 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGAAAAAATCAAATAAA
Found at i:25479027 original size:11 final size:11
Alignment explanation
Indices: 25479011--25479061 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
25479001 GTTAGACTTC
25479011 ATAATTAATTT
1 ATAATTAATTT
25479022 ATAATTAATTT
1 ATAATTAATTT
25479033 ATAATT--TTT
1 ATAATTAATTT
25479042 -TAA--AATTT
1 ATAATTAATTT
25479050 ATAATTAATTT
1 ATAATTAATTT
25479061 A
1 A
25479062 ATTAAGAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 6 0.17
9 6 0.17
11 23 0.66
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATAATTAATTT
Found at i:25486091 original size:17 final size:17
Alignment explanation
Indices: 25486069--25486101 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25486059 GCCCGGCCCG
*
25486069 TAAACCAAATCAAAATA
1 TAAACCAAATAAAAATA
25486086 TAAACCAAATAAAAAT
1 TAAACCAAATAAAAAT
25486102 TAATAACAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAACCAAATAAAAATA
Found at i:25494801 original size:9 final size:9
Alignment explanation
Indices: 25494783--25494863 Score: 56
Period size: 10 Copynumber: 8.6 Consensus size: 9
25494773 TTTAAATGAC
25494783 TTTTTATATA
1 TTTTT-TATA
25494793 TTTTTTATA
1 TTTTTTATA
25494802 -TTTTTATAA
1 TTTTTTAT-A
* *
25494811 TTTATTAGAA
1 TTTTTTA-TA
25494821 TTTTTTATA
1 TTTTTTATA
**
25494830 TTGCTTATAA
1 TTTTTTAT-A
*
25494840 GTTTTTATGA
1 TTTTTTAT-A
*
25494850 ATTTTTATA
1 TTTTTTATA
25494859 TTTTT
1 TTTTT
25494864 GATAAAATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
8 7 0.13
9 17 0.31
10 31 0.56
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.67
Consensus pattern (9 bp):
TTTTTTATA
Found at i:25494805 original size:19 final size:18
Alignment explanation
Indices: 25494783--25494868 Score: 59
Period size: 19 Copynumber: 4.5 Consensus size: 18
25494773 TTTAAATGAC
25494783 TTTTTATATATTTTTTATA
1 TTTTTATA-ATTTTTTATA
* *
25494802 TTTTTATAATTTATTAGAA
1 TTTTTATAATTTTTTA-TA
**
25494821 TTTTT-TATATTGCTTATAA
1 TTTTTATA-ATTTTTTAT-A
25494840 GTTTTTATGAA-TTTTTATA
1 -TTTTTAT-AATTTTTTATA
25494859 TTTTTGATAA
1 TTTTT-ATAA
25494869 AATTTTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
18 16 0.30
19 24 0.45
20 10 0.19
21 2 0.04
22 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTTATA
Found at i:25494837 original size:29 final size:29
Alignment explanation
Indices: 25494783--25494860 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
25494773 TTTAAATGAC
*
25494783 TTTTTAT-ATATTTTTTATATTTTTATAA-
1 TTTTTATGA-ATTTTTTATATTCTTATAAG
25494811 TTTATTA-GAATTTTTTATATTGCTTATAAG
1 TTT-TTATGAATTTTTTATATT-CTTATAAG
25494841 TTTTTATGAA-TTTTTATATT
1 TTTTTATGAATTTTTTATATT
25494861 TTTGATAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
28 15 0.34
29 23 0.52
30 6 0.14
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTTATGAATTTTTTATATTCTTATAAG
Found at i:25494868 original size:29 final size:28
Alignment explanation
Indices: 25494792--25494868 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
25494782 CTTTTTATAT
25494792 ATTTTTTATATTTTTATAATTTATTAGA
1 ATTTTTTATATTTTTATAATTTATTAGA
*
25494820 ATTTTTTATATTGCTTATAAGTTT-TTATGA
1 ATTTTTTATATT-TTTATAA-TTTATTA-GA
25494850 A-TTTTTATATTTTTGATAA
1 ATTTTTTATATTTTT-ATAA
25494869 AATTTTAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 14 0.33
29 23 0.53
30 6 0.14
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (28 bp):
ATTTTTTATATTTTTATAATTTATTAGA
Found at i:25494874 original size:29 final size:28
Alignment explanation
Indices: 25494783--25494883 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
25494773 TTTAAATGAC
*
25494783 TTTTTATATATTTTTTATATTTTTAT-AA
1 TTTTTAGA-ATTTTTTATATTTTTATAAA
* *
25494811 TTTATTAGAATTTTTTATATTGCTTATAAG
1 TTT-TTAGAATTTTTTATATT-TTTATAAA
25494841 TTTTTATGAA-TTTTTATATTTTTGATAAA
1 TTTTTA-GAATTTTTTATATTTTT-ATAAA
* *
25494870 ATTTTA-AATATTTT
1 TTTTTAGAATTTTTT
25494884 GAATTTGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.03
28 21 0.35
29 30 0.50
30 7 0.12
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (28 bp):
TTTTTAGAATTTTTTATATTTTTATAAA
Found at i:25494948 original size:31 final size:31
Alignment explanation
Indices: 25494913--25494984 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
25494903 ATAAAGAAAT
* *
25494913 TATAATTTTTTTTATAATTTTTGTAAGTTTA
1 TATAATTTTTTTTATAATTTTTATAAGTATA
*
25494944 TATAAATTTTTTTATAATTTTTATAAGTATA
1 TATAATTTTTTTTATAATTTTTATAAGTATA
25494975 TATCAATTTT
1 TAT-AATTTT
25494985 AATAATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 31 0.86
32 5 0.14
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (31 bp):
TATAATTTTTTTTATAATTTTTATAAGTATA
Found at i:25494989 original size:29 final size:30
Alignment explanation
Indices: 25494920--25494993 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
25494910 AATTATAATT
* *
25494920 TTTTTTATAATTTTTGTAAGTTTATATAAA
1 TTTTTTATAATTTTTATAAGTATATATAAA
*
25494950 TTTTTTTATAATTTTTATAAGTATATATCAA
1 -TTTTTTATAATTTTTATAAGTATATATAAA
*
25494981 -TTTTAATAATTTT
1 TTTTTTATAATTTT
25494994 ATGAGAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 12 0.31
31 27 0.69
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (30 bp):
TTTTTTATAATTTTTATAAGTATATATAAA
Found at i:25498982 original size:45 final size:44
Alignment explanation
Indices: 25498894--25498986 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 44
25498884 ATTACAACAT
25498894 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
25498938 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
25498983 CATT
1 CATT
25498987 ACAGCTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:25498989 original size:16 final size:16
Alignment explanation
Indices: 25498968--25499039 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
25498958 TTGAATTACT
*
25498968 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
25498984 ATTACAGCTTTATTCT
1 ATTACAGCTCTATTCC
*
25499000 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
25499016 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
25499032 ATTACAGC
1 ATTACAGC
25499040 GAACCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:25499386 original size:28 final size:27
Alignment explanation
Indices: 25499279--25499411 Score: 83
Period size: 28 Copynumber: 4.7 Consensus size: 27
25499269 GCTTAATTGA
25499279 TTAT-AATTTTATATTATTTATAAGTTT
1 TTATGAATTTTATATTATTTATAA-TTT
* *
25499306 TTATAAAATTTTA-AATATTT-TGAATATGTT
1 TTAT-GAATTTTATATTATTTAT--A-AT-TT
* ** **
25499336 TTATTAATTTTATAAAAAATATAATTT
1 TTATGAATTTTATATTATTTATAATTT
25499363 ATTATGAATTTTATATTATTTATAACTTT
1 -TTATGAATTTTATATTATTTATAA-TTT
* * *
25499392 TTATGATTTTTTTATAATTT
1 TTATGAATTTTATATTATTT
25499412 TCAAAAGTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
27 7 0.08
28 44 0.53
29 20 0.24
30 11 0.13
31 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (27 bp):
TTATGAATTTTATATTATTTATAATTT
Found at i:25500141 original size:32 final size:33
Alignment explanation
Indices: 25500090--25500156 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
25500080 AAATTTTTAG
* *
25500090 AAAATGATTTTAAAGAAATTA-CTAAACAACAA
1 AAAATGATTTTAAAAAAATTATCCAAACAACAA
*
25500122 AAAAT-ATTTTAAACAAAATTATCCAAACACCAA
1 AAAATGATTTTAAA-AAAATTATCCAAACAACAA
25500155 AA
1 AA
25500157 GAAAATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.27
32 11 0.37
33 11 0.37
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (33 bp):
AAAATGATTTTAAAAAAATTATCCAAACAACAA
Found at i:25500506 original size:16 final size:17
Alignment explanation
Indices: 25500477--25500531 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
25500467 TTTTTAATTT
25500477 AAATAATTTATAAA-AA
1 AAATAATTTATAAATAA
* *
25500493 AAATATTTTTTAAATAA
1 AAATAATTTATAAATAA
25500510 AAA-AA-TTATTAAATAA
1 AAATAATTTA-TAAATAA
*
25500526 ATATAA
1 AAATAA
25500532 ACAACATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.06
16 22 0.71
17 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAATTTATAAATAA
Found at i:25502027 original size:21 final size:21
Alignment explanation
Indices: 25502002--25502041 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25501992 TGCCAAGTTC
*
25502002 AAAAACTA-AAGTAGACAAAAA
1 AAAAAATACAAGTA-ACAAAAA
25502023 AAAAAATACAAGTAACAAA
1 AAAAAATACAAGTAACAAA
25502042 GTAGACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAAAATACAAGTAACAAAAA
Found at i:25503332 original size:99 final size:98
Alignment explanation
Indices: 25503053--25503543 Score: 739
Period size: 98 Copynumber: 5.0 Consensus size: 98
25503043 AAAAGAAAAG
* **
25503053 AAACTATTTTAACTTCCAAGTATTTCAAGTTCCAAACCGAGGAATGATGTTCCATATACCAATAT
1 AAACTATTTTAACTT-CAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
* * *
25503118 GGAGGTGCTACTATAAATTTCAGTTGAAGCTAGC
65 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* **
25503152 AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGACTGATACTCCATATGTCAATATG
1 AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATATG
*
25503217 GAGCTGCTACTGTAAATTTCTGTTGAAGCTAGT
66 GAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* *
25503250 AAACTATTTTAACTTCAAGTATTTCAAAATTCAAAACCGAGGAATGATGTTCCATATGTCAATGT
1 AAACTATTTTAACTTCAAGTATTTC-AAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
*
25503315 GGAGCTGCTACTGTAAATTTCAGTAGAAGCTAGT
65 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
25503349 AAACTATTTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
1 AAACTA-TTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
* *
25503414 GGAGCAGCTACTGTAAATTTCAGTTGAAGCTCGT
65 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * * * *
25503448 AAACAATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGAAATAATGCTCCATATGTAAATATG
1 AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATATG
* * * *
25503513 GACCTGATACTGTAAATCTCAGATGAAGCTA
66 GAGCTGCTACTGTAAATTTCAGTTGAAGCTA
25503544 ACAAAGTATT
Statistics
Matches: 357, Mismatches: 33, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
98 178 0.50
99 160 0.45
100 19 0.05
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (98 bp):
AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATATG
GAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
Found at i:25503600 original size:29 final size:29
Alignment explanation
Indices: 25503556--25503617 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
25503546 AAAGTATTTC
* *
25503556 AAGTTCAAAACTAAGGACTGATGTTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
*
25503585 AAGTTCAAAACCAAGGAGTGATATTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
25503614 AAGT
1 AAGT
25503618 CAATATGGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (29 bp):
AAGTTCAAAACCAAGGACTGATATTCCAT
Found at i:25505757 original size:27 final size:27
Alignment explanation
Indices: 25505719--25505795 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
25505709 TAGTATTGGC
25505719 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
25505746 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
25505773 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
25505796 GCCGGGCCGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:25506001 original size:19 final size:19
Alignment explanation
Indices: 25505979--25506016 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25505969 AATTTAATTT
*
25505979 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
25505998 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
25506017 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:25507590 original size:19 final size:18
Alignment explanation
Indices: 25507547--25507590 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
25507537 GATTTGATAT
* *
25507547 TAAAAGGTTGTTAATAAA
1 TAAAATGTTATTAATAAA
25507565 TAAAAATGTTATTAATATAA
1 T-AAAATGTTATTAATA-AA
25507585 TAAAAT
1 TAAAAT
25507591 AAAACTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
TAAAATGTTATTAATAAA
Found at i:25507677 original size:26 final size:24
Alignment explanation
Indices: 25507624--25507682 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
25507614 GTGATCATAG
*
25507624 AAAATGAAATATTTTTATTTTAATAA
1 AAAAT-AAATATTTTTATTCT-ATAA
25507650 AAAATAAATATTTATTATGTCTA-AA
1 AAAATAAATATTT-TTAT-TCTATAA
25507675 AAAATAAA
1 AAAATAAA
25507683 AAAAAGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 18 0.60
26 10 0.33
27 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (24 bp):
AAAATAAATATTTTTATTCTATAA
Found at i:25511776 original size:23 final size:23
Alignment explanation
Indices: 25511750--25511796 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25511740 AGGATCGACG
*
25511750 TCACGACGAGGA-ATGTTGTGTGA
1 TCACGAC-AGGATATATTGTGTGA
*
25511773 TCACGACATGATATATTGTGTGA
1 TCACGACAGGATATATTGTGTGA
25511796 T
1 T
25511797 TGAACCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (23 bp):
TCACGACAGGATATATTGTGTGA
Found at i:25512678 original size:23 final size:23
Alignment explanation
Indices: 25512650--25512696 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
25512640 TTTCAAGTGC
*
25512650 GCTAGTGATAGTGGCACTTCGGT
1 GCTAGTGACAGTGGCACTTCGGT
25512673 GCTAGTGACAGTGGCACTTCGGT
1 GCTAGTGACAGTGGCACTTCGGT
25512696 G
1 G
25512697 TCGTTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (23 bp):
GCTAGTGACAGTGGCACTTCGGT
Found at i:25515171 original size:18 final size:19
Alignment explanation
Indices: 25515150--25515190 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
25515140 TTAATTTTTG
25515150 TTTATTTATTTA-TTTATT
1 TTTATTTATTTAGTTTATT
* *
25515168 TTTATTTGTTTAGTTTCTT
1 TTTATTTATTTAGTTTATT
25515187 TTTA
1 TTTA
25515191 ATTCTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTATTTATTTAGTTTATT
Found at i:25524867 original size:14 final size:14
Alignment explanation
Indices: 25524848--25524875 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25524838 TTGTGTAAAT
25524848 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
25524862 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
25524876 TATAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:25524934 original size:39 final size:39
Alignment explanation
Indices: 25524847--25524971 Score: 162
Period size: 39 Copynumber: 3.1 Consensus size: 39
25524837 TTTGTGTAAA
* *
25524847 TAAAAAGAAAAGAAAAAAAAGAAAAGAAATATAAACATAGTCAA-
1 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATAT----ATA-T-AAG
*
25524891 TAAAAATAAAAGAAGAAAAAGTAAAGAAATATATATAAG
1 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
25524930 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
1 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
25524969 TAA
1 TAA
25524972 GTATGTTAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.03
39 42 0.55
40 3 0.04
44 29 0.38
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (39 bp):
TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
Found at i:25535753 original size:29 final size:29
Alignment explanation
Indices: 25535711--25535772 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
25535701 ATCTAGTTAC
25535711 CATGGAATGTTTTTCCGAATATTATTAAG
1 CATGGAATGTTTTTCCGAATATTATTAAG
*
25535740 CATGGAATGTTTTTCTGAATATTATTAAG
1 CATGGAATGTTTTTCCGAATATTATTAAG
25535769 CATG
1 CATG
25535773 ATGATAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (29 bp):
CATGGAATGTTTTTCCGAATATTATTAAG
Found at i:25541923 original size:20 final size:20
Alignment explanation
Indices: 25541886--25541923 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25541876 GTTTTTCTAG
*
25541886 TTTAAATTATTTTGTTAAAT
1 TTTAAATTATTTTATTAAAT
25541906 TTTAAATT-TTTATATTAA
1 TTTAAATTATTT-TATTAA
25541924 TAAAGAGGGT
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:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTAAATTATTTTATTAAAT
Found at i:25545321 original size:37 final size:38
Alignment explanation
Indices: 25545235--25545324 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 38
25545225 AAAGAAAATG
* * * *
25545235 AATAAAGATCAAAGAGAAGTTTGCTCAAATCTTGGAAA
1 AATAAAGAGCAAAGAAAAGATTGCTCAAATCTTGCAAA
*
25545273 AAAATAAGAGCAAAGAAAAGATTGCTCAAAT-TCT-CAAA
1 AATA-AAGAGCAAAGAAAAGATTGCTCAAATCT-TGCAAA
25545311 AATAAAGAGCAAAG
1 AATAAAGAGCAAAG
25545325 TTTGCTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 10 0.23
38 10 0.23
39 24 0.55
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (38 bp):
AATAAAGAGCAAAGAAAAGATTGCTCAAATCTTGCAAA
Found at i:25545781 original size:15 final size:16
Alignment explanation
Indices: 25545761--25545791 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25545751 ATAAAAAATA
25545761 TTTTTGA-GCATGATT
1 TTTTTGATGCATGATT
25545776 TTTTTGATGCATGATT
1 TTTTTGATGCATGATT
25545792 ATTTGTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTTGATGCATGATT
Found at i:25548803 original size:45 final size:45
Alignment explanation
Indices: 25548754--25548884 Score: 172
Period size: 45 Copynumber: 2.9 Consensus size: 45
25548744 TTTGTCTGAT
* * * * *
25548754 TCATGATACCATGACGTCTTTCAATTCTGGTCTTACTCGTTAGAA
1 TCATGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAA
* * * *
25548799 TCATGTTGCCATAACGTCTTTCAGCTATGGTCTTACTTGCTAAAA
1 TCATGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAA
*
25548844 TCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT
1 TCATGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT
25548885 TCCGGTATGG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (45 bp):
TCATGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAA
Found at i:25548970 original size:45 final size:46
Alignment explanation
Indices: 25548850--25548976 Score: 161
Period size: 45 Copynumber: 2.8 Consensus size: 46
25548840 AAAATCGTGA
* * * *
25548850 TGCCATAACGTCTTTCAACTATGGTCTTA-CTCGTTTCCGGTATGG
1 TGCCATAATGTCTTTCAACTATGGTCTTATTTAGTTTCCGGTATAG
* * * *
25548895 TGCCATAGTTTCTTTCAACTACGGTCTTATTTAG-TTCTGGTATAG
1 TGCCATAATGTCTTTCAACTATGGTCTTATTTAGTTTCCGGTATAG
25548940 TGCCATAATGTCTTTCAACTATGGTCTTATTT-GTTTC
1 TGCCATAATGTCTTTCAACTATGGTCTTATTTAGTTTC
25548977 ATTCAAACCA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 66 0.96
46 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.43
Consensus pattern (46 bp):
TGCCATAATGTCTTTCAACTATGGTCTTATTTAGTTTCCGGTATAG
Found at i:25550929 original size:42 final size:42
Alignment explanation
Indices: 25550870--25550952 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
25550860 TTGTTGTGTT
25550870 ATGCCATGATAGGGAACTAATTTT-CATAATGATTTGTATATG
1 ATGCCATGATAGGGAACT-ATTTTGCATAATGATTTGTATATG
25550912 ATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATAT
1 ATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATAT
25550953 TTGTTAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 5 0.12
42 35 0.88
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (42 bp):
ATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATATG
Found at i:25551236 original size:46 final size:46
Alignment explanation
Indices: 25551183--25551362 Score: 137
Period size: 46 Copynumber: 3.9 Consensus size: 46
25551173 GTTCTTGCCC
*
25551183 AGGTTCCCAATTCCTACATATGTTGCGGACTGGAGAATACAGATTT
1 AGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGATTT
* * * ** * * *
25551229 AGGTTCCCAATTCCTATATATGTAGCAAACTAGAGAATACAAATTC
1 AGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGATTT
** * * * * * *
25551275 AAATTTCTAGCTCTTCCATATGTTGTGGACTGGAGAATACATG-TTT
1 AGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACA-GATTT
* * * ** *
25551321 AGTTTCCCAGCTCTTGTATATGTTGCGGATTGGAGAATACAG
1 AGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAG
25551363 TAATATTAAA
Statistics
Matches: 102, Mismatches: 31, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
45 1 0.01
46 101 0.99
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (46 bp):
AGGTTCCCAACTCCTACATATGTTGCGGACTGGAGAATACAGATTT
Found at i:25558716 original size:49 final size:49
Alignment explanation
Indices: 25558663--25558894 Score: 134
Period size: 50 Copynumber: 4.7 Consensus size: 49
25558653 CAAAGCTATG
* * *
25558663 TCCCAGACATAGTCTTACATTGGATGTTTTCTGTA-C-TGCCAATGTCATA
1 TCCCAGACATAGTCTTACATGGGA-GTTCTC-ATACCGTGCCAATGTCATA
* * * *
25558712 TCCCAGATATTGTCTTACATGGGAGTTCTCATACCGGTGCCCATGTCATG
1 TCCCAGACATAGTCTTACATGGGAGTTCTCATACC-GTGCCAATGTCATA
* ** * * *
25558762 TCCCAGACATGGTCTTACGA-GGGACCTCTCAT-CTCGGTGCCAACGCCATG
1 TCCCAGACATAGTCTTAC-ATGGGAGTTCTCATAC-C-GTGCCAATGTCATA
* * ** ** *
25558812 TCCCAGACATGGTCTTACATGGAACCTCTCA-ACTCGATGCCAA-CACTATG
1 TCCCAGACATAGTCTTACATGGGAGTTCTCATAC-CG-TGCCAATGTC-ATA
* **
25558862 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATAGTCTTACATGGGAGTTCTCATA
25558895 ATCTGAATGA
Statistics
Matches: 155, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
47 2 0.01
48 6 0.04
49 25 0.16
50 120 0.77
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
TCCCAGACATAGTCTTACATGGGAGTTCTCATACCGTGCCAATGTCATA
Found at i:25558767 original size:50 final size:50
Alignment explanation
Indices: 25558699--25558941 Score: 240
Period size: 50 Copynumber: 4.7 Consensus size: 50
25558689 TTTTCTGTAC
* * * **
25558699 TGCCAATGTCATATCCCAGATATTGTCTTACATGGGAGTTCTCATAC-CGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGG
*
25558749 TGCCCATGTCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
* * * * *
25558799 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCAACTCGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
25558849 TGCCAA-CACTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTGAATG
1 TGCCAATGTC-ATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTC-G---G
* *
25558904 ATGCCAATGTCGTGTCCTAGACATGGTCTTACATGGGA
1 -TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
25558942 TCTCATTCCC
Statistics
Matches: 160, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.02
50 121 0.76
51 3 0.02
52 1 0.01
56 31 0.19
57 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:25569192 original size:20 final size:19
Alignment explanation
Indices: 25569128--25569193 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
25569118 TGTTTTTTAG
*
25569128 TATTGTGATATATGCTTGAA
1 TATTATGAT-TATGCTTGAA
* *
25569148 TATTATGTGATTAT--ATGAT
1 TATTA--TGATTATGCTTGAA
25569167 TATTATGATCTATGCTTGAA
1 TATTATGAT-TATGCTTGAA
25569187 TATTATG
1 TATTATG
25569194 CGATTATATG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 4 0.11
18 3 0.08
19 8 0.22
20 14 0.39
21 3 0.08
22 4 0.11
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (19 bp):
TATTATGATTATGCTTGAA
Found at i:25569192 original size:39 final size:39
Alignment explanation
Indices: 25569126--25569253 Score: 159
Period size: 39 Copynumber: 3.3 Consensus size: 39
25569116 CATGTTTTTT
*
25569126 AGTATTGTGATATATGCTTGAATATTATGTGATTATATG
1 AGTATTGTGATCTATGCTTGAATATTATGTGATTATATG
* * *
25569165 ATTATTATGATCTATGCTTGAATATTATGCGATTATATG
1 AGTATTGTGATCTATGCTTGAATATTATGTGATTATATG
* * *
25569204 AGTATTGTGATAC-ATGCTTAAACATTAGGTGATTATATG
1 AGTATTGTGAT-CTATGCTTGAATATTATGTGATTATATG
* *
25569243 TGTAATGTGAT
1 AGTATTGTGAT
25569254 ACAAGCTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
39 75 0.99
40 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (39 bp):
AGTATTGTGATCTATGCTTGAATATTATGTGATTATATG
Found at i:25578321 original size:22 final size:23
Alignment explanation
Indices: 25578293--25578337 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
25578283 AATATAATAA
*
25578293 ATTTCATATTTA-TAAATTAAAT
1 ATTTCATAATTATTAAATTAAAT
*
25578315 ATTTCATAATTATTCAATTAAAT
1 ATTTCATAATTATTAAATTAAAT
25578338 GCAATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTCATAATTATTAAATTAAAT
Found at i:25581778 original size:44 final size:44
Alignment explanation
Indices: 25581725--25581983 Score: 143
Period size: 44 Copynumber: 5.9 Consensus size: 44
25581715 CCTTTATTTT
* *
25581725 AATCCACTCCACTGTAATCTTAAGGAGATAGGATTACCAGCTTC
1 AATCTACTCCACTGTAATCTCAAGGAGATAGGATTACCAGCTTC
* * * * *
25581769 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATTTGA-AATTCTTC
1 AATCTACTCCACTGTAATCTCAAGGAGATAGGA-TT-ACCA-GCTTC
** * * * * * *
25581815 GGTCTATTCCACTGTAATCTCAGGGAGATA--A-GACCTGATAC
1 AATCTACTCCACTGTAATCTCAAGGAGATAGGATTACCAGCTTC
* * * ** * * ** * *
25581856 GATCTATTCTACTGTAA-CTTTAGAGAGATAAGATCATTTA-TTTT
1 AATCTACTCCACTGTAATCTCAAG-GAGATAGGATTA-CCAGCTTC
* * *
25581900 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACCAACTTC
1 AATCTACTCCACTGTAATCTCAAGGAGATAGGATTACCAGCTTC
* *
25581944 AATCTGCTCCGCTGTAATCTCAAGGAGATAGGATTCACCA
1 AATCTACTCCACTGTAATCTCAAGGAGATAGGATT-ACCA
25581984 TCTTTGATCT
Statistics
Matches: 157, Mismatches: 46, Indels: 23
0.69 0.20 0.10
Matches are distributed among these distances:
40 3 0.02
41 24 0.15
43 2 0.01
44 87 0.55
45 10 0.06
46 31 0.20
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
AATCTACTCCACTGTAATCTCAAGGAGATAGGATTACCAGCTTC
Found at i:25581916 original size:175 final size:174
Alignment explanation
Indices: 25581450--25581973 Score: 819
Period size: 175 Copynumber: 3.0 Consensus size: 174
25581440 TACTATTTAC
* * * *
25581450 GGAGACAAGATCTGTAATTCTTCGGTTTATTCCACTGTAATCTCATGGAGATAAGACCTGACGCG
1 GGAGATAAGATCTGAAATTCTTCGGTTTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCG
25581515 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
25581580 AGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGT-ATCTCA
131 AGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCA
* * *
25581623 GG-G---AG--CTGAAATTCTTCGGTTTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGTG
1 GGAGATAAGATCTGAAATTCTTCGGTTTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCG
*
25581682 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
25581747 AGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCA
131 AGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCA
* * *
25581791 GGGAGATAAGATTTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
1 -GGAGATAAGATCTGAAATTCTTCGGTTTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
* * * *
25581856 GATCTATTCTACTGTAACTTTAGAGAGATAAGATCATTTATTTTAATCCACTCCACTGTAATCTC
65 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTT
* * *
25581921 AGGGAGATAGGATTACCAACTTCAATCTGCTCCGCTGTAATCTCAA
130 AAGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTC-A
25581967 GGAGATA
1 GGAGATA
25581974 GGATTCACCA
Statistics
Matches: 321, Mismatches: 21, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
167 149 0.46
168 6 0.02
169 4 0.01
170 1 0.00
172 1 0.00
173 4 0.01
175 155 0.48
176 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (174 bp):
GGAGATAAGATCTGAAATTCTTCGGTTTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTA
AGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCA
Found at i:25590495 original size:19 final size:19
Alignment explanation
Indices: 25590471--25590516 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
25590461 AATAATCTTA
* *
25590471 AATGCATATG-ATGACATG
1 AATGCAAATGCATGAAATG
25590489 TAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
25590509 AATGCAAA
1 AATGCAAA
25590517 AAAGAGCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:25594419 original size:19 final size:20
Alignment explanation
Indices: 25594386--25594425 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
25594376 TAAAAAAAAG
*
25594386 AATTTAAAATAATGTTGATA
1 AATTTAAAATAATGTGGATA
*
25594406 AATTT-AAATGATGTGGATA
1 AATTTAAAATAATGTGGATA
25594425 A
1 A
25594426 TAATTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATTTAAAATAATGTGGATA
Found at i:25600389 original size:25 final size:25
Alignment explanation
Indices: 25600343--25600398 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25600333 CAGCTCTCTT
***
25600343 GAGCTTCCCAATATTTGGCTCACAA
1 GAGCTTCCCAATATTCAACTCACAA
* *
25600368 GAGCTTCCCATTATTCAACTCACAT
1 GAGCTTCCCAATATTCAACTCACAA
25600393 GAGCTT
1 GAGCTT
25600399 TCCGTTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCAATATTCAACTCACAA
Found at i:25625841 original size:43 final size:43
Alignment explanation
Indices: 25625785--25626556 Score: 629
Period size: 43 Copynumber: 18.0 Consensus size: 43
25625775 CCGACACAAT
* * * * *
25625785 TATACTAGTACACACAGTGCATCATTGGATATACCGAAGCAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
** * * *
25625828 TATACAAGCACACACAGTGCATTATAGGATATACTC-AAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAAC-CGAAGTAAC
* * * ** **
25625871 TATAATGGCACACACAATGCATCATCAGATAAATTGAAGTATG
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
25625914 TATACTGGCACATACAGTGCATCATTC-AACT-AACCAAAGAAAA
1 TATACTGGCACACACAGTGCATCA-TCGGA-TAAACCGAAGTAAC
* * * ** * *
25625957 TATACTAGAACACACAGTGCATCACCGGATAAATTGAACTAGC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
25626000 TATACTAGCACACACAGTGCATCATCGGATAAATCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * *
25626043 TATACCT-GCACACATAGTGCATCATCGGATAAACTGAA-TAAAA
1 TATA-CTGGCACACACAGTGCATCATCGGATAAACCGAAGT-AAC
* * * ** * *
25626086 TATACTGGCACACATATTACATCATCAAATAAACTGAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* ***
25626129 TATACTGGCACATACAGTGCATCATCGGATAAATTAAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * *
25626172 TATGCTGGCATACATAGTGCATCATCGGATAAACCGAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * **
25626215 TATACTGGCACACACAATGTACCATCGAATAAATTGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
25626258 TATACTTGCACACATAGTGCATCATCAGATAAACCGAAATATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * *
25626301 TATACTGGCACATATAGTGCATCATCGGATAAATCGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * *
25626344 TATATTGGCACACACAGTGCATCATCAGATAAACTGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
25626387 TATACTCGCACACATAGTGCATCATCAGATAAACCAAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * ** *
25626430 TATACTGACACATATAGTACATCATTAGATAAATCGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * ** *
25626473 TATACTAGCATACCCAGTGCATCA-CTAAATAAACCAAAGTAAC
1 TATACTGGCACACACAGTGCATCATC-GGATAAACCGAAGTAAC
* * * *
25626516 TATACCGACACATATAGTGCATCATCGGATAAACCGAAGTA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTA
25626557 TAACCTGTAT
Statistics
Matches: 574, Mismatches: 143, Indels: 24
0.77 0.19 0.03
Matches are distributed among these distances:
42 4 0.01
43 562 0.98
44 8 0.01
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
Done.