Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 274 of 297
Found at i:93465267 original size:182 final size:182
Alignment explanation
Indices: 93464958--93465331 Score: 703
Period size: 182 Copynumber: 2.1 Consensus size: 182
93464948 ATTCTTGCAA
* *
93464958 CTGAGACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACGGAGTTATCGAAATTGGAGTAG
1 CTGAGACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCGAAATTGGAGTAG
*
93465023 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCGGGAGTTCTTCA
66 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCGGAAGTTCTTCA
*
93465088 AGAAACACATCAGGGAACTTACAAACAACAGGCATAGATTTAACTTTCTTTT
131 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
93465140 CTGAGACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCGAAATTGGAGTAG
1 CTGAGACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCGAAATTGGAGTAG
93465205 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCGGAAGTTCTTCA
66 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCGGAAGTTCTTCA
93465270 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
131 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
*
93465322 CTGACACTTT
1 CTGAGACTTT
93465332 CGAATTAATC
Statistics
Matches: 187, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 187 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (182 bp):
CTGAGACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCGAAATTGGAGTAG
TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCGGAAGTTCTTCA
AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
Found at i:93468606 original size:30 final size:29
Alignment explanation
Indices: 93468563--93468623 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
93468553 CAAGTAGCCG
93468563 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
93468592 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
93468622 AA
1 AA
93468624 ACTTCCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:93470898 original size:55 final size:53
Alignment explanation
Indices: 93470811--93471065 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
93470801 ATTAGGGTTT
*
93470811 AAGGATACCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAA-GTTTCTAAGG
* * * * *
93470865 CAAGGATACCATGTAAGACCATGTCAAGACAT-GGCATTGATAAGTTACTATAAG
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTCTA-AGG
** * * * *
93470919 AAAAATGTCCCATGTAAGACCATGCCAAGGCAT-GGCATTGGTGAG-TTCGTAAGG
1 AAGGA--TACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTC-TAAGG
* * *
93470973 CAAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA--
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTCTAAGG
* * *
93471023 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAG
93471066 GTACCCATGT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 40 0.24
52 2 0.01
53 37 0.22
54 20 0.12
55 67 0.40
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTCTAAGG
Found at i:93471017 original size:108 final size:110
Alignment explanation
Indices: 93470818--93471018 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
93470808 TTTAAGGATA
93470818 CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
93470883 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGAAAAATGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGAAAAATGTC
* *
93470928 CCATGTAAGACCATGCCAAGGCAT-GGCATTGGTGA-G-TTCGTAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
93470990 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
93471019 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 9 0.11
110 24 0.28
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGAAAAATGTC
Found at i:93471278 original size:16 final size:16
Alignment explanation
Indices: 93471257--93471287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93471247 ATAAATTTGA
93471257 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
93471273 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
93471288 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:93473246 original size:62 final size:61
Alignment explanation
Indices: 93473111--93473246 Score: 166
Period size: 62 Copynumber: 2.2 Consensus size: 61
93473101 TGCCCCTCTG
* * *
93473111 CCTTGGCCATGTGGTTTTAAGCGTAAACAGTGAGTTACACGGCCCGGGCACATGCTCGTGT
1 CCTTGGCCATGTGGTTTTAAGCGCAAACAGTGAGTTACACGGCCCGGGCACACGCCCGTGT
* * * **
93473172 CCCTGGCAATGTGGTTTTATA-CTGCAAACAGTGAGTTACATGGCTTGGGCACACGCCCGTGT
1 CCTTGGCCATGTGGTTTTA-AGC-GCAAACAGTGAGTTACACGGCCCGGGCACACGCCCGTGT
*
93473234 CCTTGACCATGTG
1 CCTTGGCCATGTG
93473247 AACCCTACAC
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 18 0.29
62 44 0.71
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (61 bp):
CCTTGGCCATGTGGTTTTAAGCGCAAACAGTGAGTTACACGGCCCGGGCACACGCCCGTGT
Found at i:93473697 original size:7 final size:6
Alignment explanation
Indices: 93473661--93473720 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
93473651 ATCAAAAAAG
93473661 AAGAAA AAGTAGAA AAG--A AAGAAA AAGAAA AAGGAAA AAGAAA AA-AAA
1 AAGAAA AAG-A-AA AAGAAA AAGAAA AAGAAA AA-GAAA AAGAAA AAGAAA
*
93473709 ACGAAA GAAGAA
1 AAGAAA -AAGAA
93473721 CTAACAGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 21 0.47
7 11 0.24
8 5 0.11
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:93473699 original size:13 final size:13
Alignment explanation
Indices: 93473661--93473705 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
93473651 ATCAAAAAAG
*
93473661 AAGAAAAAGTAGAA
1 AAGAAAAAGGA-AA
93473675 AAG--AAA-GAAA
1 AAGAAAAAGGAAA
93473685 AAGAAAAAGGAAA
1 AAGAAAAAGGAAA
93473698 AAGAAAAA
1 AAGAAAAA
93473706 AAAACGAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
10 5 0.19
11 1 0.04
12 6 0.22
13 12 0.44
14 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAGAAAAAGGAAA
Found at i:93473699 original size:23 final size:24
Alignment explanation
Indices: 93473641--93473714 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
93473631 ATTAAAGAGG
* *
93473641 AAAAGG-GAAAATCAAAAAAGAAGA
1 AAAAGGAGAAAA-GAAAAAAAAAGA
* *
93473665 AAAAGTAGAAAAGAAAGAAAAAGA
1 AAAAGGAGAAAAGAAAAAAAAAGA
93473689 AAAAGGA-AAAAGAAAAAAAAACGA
1 AAAAGGAGAAAAGAAAAAAAAA-GA
93473713 AA
1 AA
93473715 GAAGAACTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
23 13 0.31
24 24 0.57
25 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (24 bp):
AAAAGGAGAAAAGAAAAAAAAAGA
Found at i:93473704 original size:18 final size:17
Alignment explanation
Indices: 93473678--93473720 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
93473668 AGTAGAAAAG
*
93473678 AAAGAAAAAGAAAAAGGAA
1 AAAG-AAAA-AAAAACGAA
93473697 AAAGAAAAAAAAACGAA
1 AAAGAAAAAAAAACGAA
93473714 AGAAGAA
1 A-AAGAA
93473721 CTAACAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 9 0.41
19 4 0.18
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAACGAA
Found at i:93475319 original size:43 final size:43
Alignment explanation
Indices: 93475269--93475375 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
93475259 TATGTGTTCT
* *
93475269 CATGTAAGACCACGTCTGGGACATTGGCATCGATAAGTGATTA
1 CATGTAAGACCACGTCTGGGACAGTAGCATCGATAAGTGATTA
* ** *
93475312 CGTGTAAGACCTTGTCTGGGACAGTAGCATCGATATGTGATTA
1 CATGTAAGACCACGTCTGGGACAGTAGCATCGATAAGTGATTA
93475355 CATGTAAGACCACGTCTGGGA
1 CATGTAAGACCACGTCTGGGA
93475376 TGTTGACATT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGTAGCATCGATAAGTGATTA
Found at i:93475691 original size:46 final size:46
Alignment explanation
Indices: 93475619--93475722 Score: 174
Period size: 46 Copynumber: 2.3 Consensus size: 46
93475609 TTATGTATAA
* *
93475619 GTATGTGATATTAATGTTTGATTCACGAGTTTATGCATATGAGTGT
1 GTATATGATATTAAAGTTTGATTCACGAGTTTATGCATATGAGTGT
93475665 GTATATGATATTAAAGTTTGATTCACGAGTTTATGCATATGAGTGT
1 GTATATGATATTAAAGTTTGATTCACGAGTTTATGCATATGAGTGT
*
93475711 ATATAT-ATATTA
1 GTATATGATATTA
93475723 GGTCATATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 6 0.11
46 49 0.89
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (46 bp):
GTATATGATATTAAAGTTTGATTCACGAGTTTATGCATATGAGTGT
Found at i:93479229 original size:8 final size:8
Alignment explanation
Indices: 93479205--93479238 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
93479195 TTGGACATAA
93479205 TAATATTT
1 TAATATTT
*
93479213 GATATATTT
1 TA-ATATTT
93479222 TAATATTT
1 TAATATTT
93479230 TAATATTT
1 TAATATTT
93479238 T
1 T
93479239 TAGAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:93479239 original size:17 final size:18
Alignment explanation
Indices: 93479205--93479253 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
93479195 TTGGACATAA
*
93479205 TAATA-TTTGATATATTT
1 TAATATTTTAATATATTT
93479222 TAATATTTTAATAT-TTT
1 TAATATTTTAATATATTT
93479239 TAGA-ATTTTAA-ATAT
1 TA-ATATTTTAATATAT
93479254 AAAATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.07
17 18 0.64
18 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TAATATTTTAATATATTT
Found at i:93480696 original size:38 final size:38
Alignment explanation
Indices: 93480645--93480721 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
93480635 TTATCCGCCA
*
93480645 ATCATAAGAATCTTCCATAGTTGTATGTAGGGAGGTAT
1 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
93480683 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
1 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
93480721 A
1 A
93480722 CACCCTTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (38 bp):
ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
Found at i:93484020 original size:56 final size:57
Alignment explanation
Indices: 93483958--93484081 Score: 155
Period size: 56 Copynumber: 2.2 Consensus size: 57
93483948 TCTTGTTTCC
* * * **
93483958 AACATATGCTCATAAGAGCAT-AA-TCAGGATTACTAGTCTAGG-TAAATCCTTTCTGT
1 AACATATGCTCAGAAGAGC-TCAACT-AGGATTACCAGTCCAGGTTAAATCCTAACTGT
*
93484014 AGCATATGCTCAGAAGAGCTCAACTAGGATTACCAGTCCAGGTTAAATCCTAACTGT
1 AACATATGCTCAGAAGAGCTCAACTAGGATTACCAGTCCAGGTTAAATCCTAACTGT
93484071 AACATATGCTC
1 AACATATGCTC
93484082 GAGAGGGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
55 1 0.02
56 34 0.59
57 23 0.40
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (57 bp):
AACATATGCTCAGAAGAGCTCAACTAGGATTACCAGTCCAGGTTAAATCCTAACTGT
Found at i:93491117 original size:27 final size:25
Alignment explanation
Indices: 93491082--93491146 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 25
93491072 ATCTCAAATC
*
93491082 CTCTTATCCTTTCACTTTTCTCTCA
1 CTCTTATCCTTTCACTTCTCTCTCA
93491107 CTCTTNNATCCTTTCACTTCTCTCTCA
1 CTCTT--ATCCTTTCACTTCTCTCTCA
93491134 CTCTT-TCCTTTCA
1 CTCTTATCCTTTCA
93491147 AAACCCCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 8 0.22
25 5 0.14
27 24 0.65
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.49
Consensus pattern (25 bp):
CTCTTATCCTTTCACTTCTCTCTCA
Found at i:93505579 original size:26 final size:26
Alignment explanation
Indices: 93505550--93506359 Score: 1620
Period size: 26 Copynumber: 31.2 Consensus size: 26
93505540 TGATACAAAT
93505550 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505576 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505602 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505628 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505654 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505680 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505706 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505732 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505758 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505784 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505810 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505836 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505862 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505888 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505914 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505940 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505966 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93505992 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506018 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506044 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506070 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506096 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506122 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506148 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506174 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506200 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506226 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506252 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506278 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506304 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506330 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93506356 TGAT
1 TGAT
93506360 GGGAATTTCA
Statistics
Matches: 784, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 784 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93507192 original size:43 final size:43
Alignment explanation
Indices: 93507137--93507278 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
93507127 TTTCGAAAAA
*
93507137 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGATTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGATTTTTTCAC
* *
93507180 AAACTCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGATTTTTTCAC
* * *
93507223 AAACGCCGCTAAAGATCATAACCTTTAGCGGC-ACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGA-TTTTTTCAC
93507266 AAACGCCGCTAAA
1 AAACGCCGCTAAA
93507279 AATAATGATC
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGATTTTTTCAC
Found at i:93511673 original size:49 final size:50
Alignment explanation
Indices: 93511599--93511703 Score: 185
Period size: 49 Copynumber: 2.1 Consensus size: 50
93511589 GATGCAATTT
*
93511599 TGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCTATGGAAC
1 TGAAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAAC
*
93511649 T-AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGTAAC
1 TGAAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAAC
93511698 TGAAAG
1 TGAAAG
93511704 TTGAATGGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
49 47 0.90
50 5 0.10
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (50 bp):
TGAAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTATGGAAC
Found at i:93511871 original size:40 final size:40
Alignment explanation
Indices: 93511808--93512050 Score: 330
Period size: 40 Copynumber: 6.4 Consensus size: 40
93511798 AGAGTTATAT
* *
93511808 ATATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
93511848 ATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
93511888 ATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
93511928 ATATATCCGGGCTAAGTTCCGAAGAGCA-T--T-C--GTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
93511962 -----T-CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
93511996 ATATATCTGGGCTAAGTTCCGAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
93512036 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
93512051 ACCTCGAAGG
Statistics
Matches: 180, Mismatches: 11, Indels: 24
0.84 0.05 0.11
Matches are distributed among these distances:
28 21 0.12
29 2 0.01
31 1 0.01
32 1 0.01
34 6 0.03
36 1 0.01
37 1 0.01
39 2 0.01
40 145 0.81
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:93511975 original size:28 final size:28
Alignment explanation
Indices: 93511935--93511989 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
93511925 GTGATATATC
93511935 CGGGCTAAGTTCCGAAGAGCATTCGTGT
1 CGGGCTAAGTTCCGAAGAGCATTCGTGT
93511963 CGGGCTAAGTTCCGAAGAGCATTCGTG
1 CGGGCTAAGTTCCGAAGAGCATTCGTG
93511990 CTAGTGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGCTAAGTTCCGAAGAGCATTCGTGT
Found at i:93512008 original size:68 final size:68
Alignment explanation
Indices: 93511895--93512026 Score: 246
Period size: 68 Copynumber: 1.9 Consensus size: 68
93511885 GTGATGTATC
93511895 CGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCG
1 CGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCG
93511960 TGT
66 TGT
* *
93511963 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCTGGGCTAAGTTCCGAAGAGCATTC
1 CGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTC
93512027 ATGCTAGTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (68 bp):
CGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCG
TGT
Found at i:93512044 original size:108 final size:108
Alignment explanation
Indices: 93511855--93512050 Score: 347
Period size: 108 Copynumber: 1.8 Consensus size: 108
93511845 GTGATGTATC
* * *
93511855 CGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCG
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCA
93511920 TGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGT
66 TGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGT
* *
93511963 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCTGGGCTAAGTTCCGAAGAGCATTCA
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCA
93512028 TGCTAGTGATATATCCGGGCTAA
66 TGCTAGTGATATATCCGGGCTAA
93512051 ACCTCGAAGG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 83 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (108 bp):
CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCA
TGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGT
Found at i:93512059 original size:40 final size:40
Alignment explanation
Indices: 93511963--93512070 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
93511953 GCATTCGTGT
** *
93511963 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAACCTCCGAAGAGCATTCATGCTAGTGATATATC
* **
93512003 TGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATATC
1 CGGGCTAACCTCCGAAGAGCATTCATGCTAGTGATATATC
93512043 CGGGCTAAACCT-CGAAG-GCATTCATGCT
1 CGGGCT-AACCTCCGAAGAGCATTCATGCT
93512071 GGAGTTATGA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 11 0.18
40 48 0.77
41 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CGGGCTAACCTCCGAAGAGCATTCATGCTAGTGATATATC
Found at i:93512174 original size:57 final size:57
Alignment explanation
Indices: 93512078--93512209 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 57
93512068 GCTGGAGTTA
* *
93512078 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGT-AG
1 TGAGGCACTGTGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTCAG
* * * ** *
93512134 TTGAGGCACTATGTGTGCGAGTTCTTTAATCGAGTGCTATGTGTGCGAAATCAGTCAG
1 -TGAGGCACTGTGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTCAG
*
93512192 TG-GGCACTGTGTATGCGA
1 TGAGGCACTGTGTGTGCGA
93512210 AGTGTGTTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 14 0.22
57 48 0.75
58 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCCAAATCAGTCAG
Found at i:93514032 original size:96 final size:95
Alignment explanation
Indices: 93513869--93514059 Score: 355
Period size: 96 Copynumber: 2.0 Consensus size: 95
93513859 ATTTGATGTG
*
93513869 CCAAATTAATGATGTTTATTTAGTTGCAATTTATGGTGTCTAAACCTGATTGTTAAGGGGTTAAA
1 CCAAATTAATGATGTTTATTTAGTTGCAATTTATGGCGTCTAAACCTGATTGTTAAGGGGTTAAA
*
93513934 GCAGCCATTTAGGAAGCTGTTGGATGAGAA
66 GCAGCCATTTAGGAAGCTGTTGCATGAGAA
93513964 CCAAATTAATGATGTTTAATTTAGTTGCAATTTATGGCGTCTAAACCTGATTGTTAAGGGGTTAA
1 CCAAATTAATGATGTTT-ATTTAGTTGCAATTTATGGCGTCTAAACCTGATTGTTAAGGGGTTAA
93514029 AGCAGCCATTTAGGAAGCTGTTGCATGAGAA
65 AGCAGCCATTTAGGAAGCTGTTGCATGAGAA
93514060 TAAAAGCAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 17 0.18
96 76 0.82
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (95 bp):
CCAAATTAATGATGTTTATTTAGTTGCAATTTATGGCGTCTAAACCTGATTGTTAAGGGGTTAAA
GCAGCCATTTAGGAAGCTGTTGCATGAGAA
Found at i:93517608 original size:15 final size:16
Alignment explanation
Indices: 93517582--93517612 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
93517572 TGTTTCTTGC
93517582 TTTTAGATCATATATA
1 TTTTAGATCATATATA
93517598 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
93517613 AGATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:93520541 original size:7 final size:7
Alignment explanation
Indices: 93520529--93520553 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
93520519 ATATAGACTA
93520529 AAATATT
1 AAATATT
93520536 AAATATT
1 AAATATT
93520543 AAATATT
1 AAATATT
93520550 AAAT
1 AAAT
93520554 TTTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:93520571 original size:14 final size:14
Alignment explanation
Indices: 93520552--93520600 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
93520542 TAAATATTAA
93520552 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
93520567 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
* *
93520581 ATTTTTAAATTTTA
1 ATTTTTAATTTTTT
93520595 ATTTTT
1 ATTTTT
93520601 TTGAAGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 23 0.77
15 7 0.23
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:93520578 original size:6 final size:7
Alignment explanation
Indices: 93520561--93520601 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
93520551 AATTTTTAAG
93520561 TTTTTTA
1 TTTTTTA
93520568 TTTTTTA
1 TTTTTTA
93520575 TTTTTTA
1 TTTTTTA
*
93520582 TTTTTAA
1 TTTTTTA
* *
93520589 ATTTTAA
1 TTTTTTA
93520596 TTTTTT
1 TTTTTT
93520602 TGAAGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:93521923 original size:42 final size:42
Alignment explanation
Indices: 93521818--93522038 Score: 249
Period size: 41 Copynumber: 5.4 Consensus size: 42
93521808 GACTATATGA
* * * * *
93521818 CTTTTAGCGACATTTTACCAAAAGCGCAGTTAATGCTCTCGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
93521860 C-TTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
93521901 CTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
** *
93521943 C-TTTAGCGGAATTTTACCAAAAGCGCCACTAATGCTCT-GT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
93521983 -TTTTAGCGGCGTTTTAACAAAAAACGCCGC-AATTACTCT-G-
1 CTTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAA-TGCTCTGGT
*
93522023 CTTTTAGTGGCGTTTT
1 CTTTTAGCGGCGTTTT
93522039 TGTTAAAATG
Statistics
Matches: 155, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
40 16 0.10
41 99 0.64
42 40 0.26
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (42 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:93521958 original size:83 final size:82
Alignment explanation
Indices: 93521818--93522004 Score: 259
Period size: 83 Copynumber: 2.3 Consensus size: 82
93521808 GACTATATGA
* * * * **
93521818 CTTTTAGCGACATTTTACCAAAAGCGCAGTTAATGCTCTCGTCTTTAGCGGCGTTTTACCAAAAG
1 CTTTTAGCGGCGTTTTAACAAAAGCGCAGCTAATGCTCTCGTCTTTAGCGGAATTTTACCAAAAG
* *
93521883 TGCCGCTAATGCTCTGGT
66 CGCCACTAATGCTCT-GT
* * *
93521901 CTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGAATTTTACCAAAAG
1 CTTTTAGCGGCGTTTTAACAAAAGCGCAGCTAATGCTCTCGTCTTTAGCGGAATTTTACCAAAAG
93521966 CGCCACTAATGCTCTGT
66 CGCCACTAATGCTCTGT
93521983 -TTTTAGCGGCGTTTTAACAAAA
1 CTTTTAGCGGCGTTTTAACAAAA
93522005 AACGCCGCAA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 21 0.23
82 2 0.02
83 70 0.75
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (82 bp):
CTTTTAGCGGCGTTTTAACAAAAGCGCAGCTAATGCTCTCGTCTTTAGCGGAATTTTACCAAAAG
CGCCACTAATGCTCTGT
Found at i:93523020 original size:26 final size:26
Alignment explanation
Indices: 93522957--93523032 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
93522947 AAAAGCAGCT
* * * *
93522957 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
93522985 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
*
93523011 AAATTACTGTTATACCTCTAGG
1 AAATTACTGTTATACCCCTAGG
93523033 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:93523185 original size:27 final size:26
Alignment explanation
Indices: 93523155--93523213 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
93523145 ATGCCAGAAT
* *
93523155 TATCTGATCTAGTGGCTTTGCCACATA
1 TATCTGATCTAGTGGCTCTACCACA-A
* * *
93523182 TATCTGTTTTGGTGGCTCTACCACAA
1 TATCTGATCTAGTGGCTCTACCACAA
93523208 TATCTG
1 TATCTG
93523214 TATTTGGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
TATCTGATCTAGTGGCTCTACCACAA
Found at i:93523219 original size:27 final size:27
Alignment explanation
Indices: 93523166--93523222 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
93523156 ATCTGATCTA
* *
93523166 GTGGCTTTGCCACATATATCTGTTTTG
1 GTGGCTCTACCACATATATCTGTTTTG
93523193 GTGGCTCTACCACA-ATATCTGTATTTG
1 GTGGCTCTACCACATATATCTGT-TTTG
93523220 GTG
1 GTG
93523223 ACATCGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (27 bp):
GTGGCTCTACCACATATATCTGTTTTG
Found at i:93529502 original size:26 final size:26
Alignment explanation
Indices: 93529473--93529528 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
93529463 TGATACAAAT
93529473 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93529499 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93529525 TGAT
1 TGAT
93529529 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93531035 original size:26 final size:26
Alignment explanation
Indices: 93530972--93531047 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
93530962 AAAAGCAGCT
* * * *
93530972 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
93531000 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
93531026 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
93531048 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:93531191 original size:27 final size:28
Alignment explanation
Indices: 93531151--93531265 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 28
93531141 AGGAAGCGTC
*
93531151 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
93531178 CTGGTGGCTCTGCCAC-ATATATCTGTAT
1 CTGGTGGCTCTGCCACAAT-TATCTGTAT
* *
93531206 CTGGTGACT-TCGTCACAATTATCTG-AT
1 CTGGTGGCTCT-GCCACAATTATCTGTAT
93531233 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
93531260 CTGGTG
1 CTGGTG
93531266 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.10
27 46 0.60
28 21 0.27
29 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:93531276 original size:27 final size:26
Alignment explanation
Indices: 93531151--93531283 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 26
93531141 AGGAAGCGTC
* *
93531151 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGAT
*
93531178 CTGGTGGCTCTGCCACATATATCTGTAT
1 CTGGTGACTCTGCCACA-ATATCTG-AT
*
93531206 CTGGTGACT-TCGTCACAATTATCTGAT
1 CTGGTGACTCT-GCCACAA-TATCTGAT
*
93531233 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTG-AT
*
93531260 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
93531284 GCAGCCTCGC
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.08
27 62 0.67
28 23 0.25
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGAT
Found at i:93531278 original size:54 final size:55
Alignment explanation
Indices: 93531164--93531283 Score: 226
Period size: 55 Copynumber: 2.2 Consensus size: 55
93531154 GTGGCTATGC
93531164 CACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGACTTCGT
1 CACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGACTTCGT
93531219 CACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACTTCGT
1 CACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGACTTCGT
93531273 CACAA-TATCTG
1 CACAATTATCTG
93531284 GCAGCCTCGC
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
53 6 0.09
54 28 0.43
55 31 0.48
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (55 bp):
CACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGACTTCGT
Found at i:93535818 original size:56 final size:54
Alignment explanation
Indices: 93535715--93535825 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 54
93535705 AATCAAATTT
* * * *
93535715 TGGTTCAACATGGTGAAATCTGAAATAATGAGTAAACCTGCTATTTTTGATTGA
1 TGGTTCAACATGGTGAAATCTAAAATAACGAGTAAACCTACTATTTTTGACTGA
* * * *
93535769 TGGTTCAGCAATGGTGAAAATCTAAAATAACGAGTATACTTACTGTTTTTGACTGA
1 TGGTTCAAC-ATGGTG-AAATCTAAAATAACGAGTAAACCTACTATTTTTGACTGA
93535825 T
1 T
93535826 TTCTAATCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 8 0.17
55 6 0.13
56 33 0.70
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGTTCAACATGGTGAAATCTAAAATAACGAGTAAACCTACTATTTTTGACTGA
Found at i:93542998 original size:86 final size:86
Alignment explanation
Indices: 93542849--93543019 Score: 315
Period size: 86 Copynumber: 2.0 Consensus size: 86
93542839 TTTATAACAG
* *
93542849 TAAATGTCTTTCTCCGTTGCTTTCAAAATTTAAAACACAATAACAAAAACATTACCTTGTGAATC
1 TAAATATCTTTCTCCGTTGCTTTCAAAATTTAAAACACAATAACAAAAACATTACCTTATGAATC
93542914 TGAATCTCTCCCTAAAATCAA
66 TGAATCTCTCCCTAAAATCAA
93542935 TAAATATCTTTCTCCGTTGCTTTCAAAATTTAAAACACAATAACAAAAACATTACCTTATGAATC
1 TAAATATCTTTCTCCGTTGCTTTCAAAATTTAAAACACAATAACAAAAACATTACCTTATGAATC
*
93543000 TGAATCTCTCCCTCAAATCA
66 TGAATCTCTCCCTAAAATCA
93543020 GCCAACTGTT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.33
Consensus pattern (86 bp):
TAAATATCTTTCTCCGTTGCTTTCAAAATTTAAAACACAATAACAAAAACATTACCTTATGAATC
TGAATCTCTCCCTAAAATCAA
Found at i:93547158 original size:27 final size:27
Alignment explanation
Indices: 93547087--93547197 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
93547077 AGCATGGCTG
* *
93547087 CCAGAACAGATAA-TG-GACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
93547112 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
93547140 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
93547167 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
93547194 CCAG
1 CCAG
93547198 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
25 5 0.07
26 11 0.15
27 43 0.57
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:93548643 original size:24 final size:24
Alignment explanation
Indices: 93548616--93548662 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
93548606 CTAGATTTCC
**
93548616 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
93548640 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
93548663 CTCCTAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:93560516 original size:40 final size:40
Alignment explanation
Indices: 93560461--93560905 Score: 682
Period size: 40 Copynumber: 11.2 Consensus size: 40
93560451 CGGATGATAA
* * * * *
93560461 CGAAGGCATTCGTGCTAGTGACTA-ATTCCGGGCTAAGTCT
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGAGCTAAGTCC
* * * *
93560501 CGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGAGCTAAGTCC
93560541 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
93560581 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
93560621 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
93560661 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
93560701 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
93560741 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
* *
93560781 CGAAGGCATTTGTGCGAGTTACTATGTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
* *
93560821 CGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
* * * *
93560861 CGAAGGCATTTGAGCGAG-TAGCTACATCCG-GTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGAGCTAAGTCC
93560900 CGAAGG
1 CGAAGG
93560906 TACTTGGTTT
Statistics
Matches: 387, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
39 15 0.04
40 371 0.96
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
Found at i:93568805 original size:40 final size:40
Alignment explanation
Indices: 93568750--93568967 Score: 302
Period size: 40 Copynumber: 5.5 Consensus size: 40
93568740 CGGATGATAA
*
93568750 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
93568790 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
93568830 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
93568870 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGCT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
*
93568910 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
93568950 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
93568968 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 16 0.10
40 150 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:93571379 original size:32 final size:32
Alignment explanation
Indices: 93571338--93571405 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
93571328 TACTCAATTG
*
93571338 AATTTCCATACATACATGTACCATCTCGTACC
1 AATTTCCATACATACATGTACCATCTCATACC
93571370 AATTTCCATACATACATGTACCATCTCATACC
1 AATTTCCATACATACATGTACCATCTCATACC
93571402 AATT
1 AATT
93571406 CTCGTACTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.32
Consensus pattern (32 bp):
AATTTCCATACATACATGTACCATCTCATACC
Found at i:93571512 original size:28 final size:28
Alignment explanation
Indices: 93571484--93571583 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
93571474 CGATACCTCG
*
93571484 CACACTAAGTGCCATTATGGATGTTTCG
1 CACACTAAGTGCCATTATGGATGTTTCA
* ** * * **
93571512 CACACTAAGTACCATCCTCGTTACTTCA
1 CACACTAAGTGCCATTATGGATGTTTCA
* *
93571540 CACACTAAGTGCCATTCAGGGATGTATCA
1 CACACTAAGTGCCATT-ATGGATGTTTCA
*
93571569 CATACTAAGTGCCAT
1 CACACTAAGTGCCAT
93571584 CCCGGATACT
Statistics
Matches: 53, Mismatches: 18, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
28 34 0.64
29 19 0.36
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
CACACTAAGTGCCATTATGGATGTTTCA
Found at i:93571594 original size:57 final size:55
Alignment explanation
Indices: 93571467--93571610 Score: 162
Period size: 57 Copynumber: 2.5 Consensus size: 55
93571457 ACAATAGATT
* * * *
93571467 CCATACCCGATACCTCGCACACTAAGTGCCATTATGGATGTTTCGCACACTAAGTA
1 CCAT-CCCGATACTTCGCACACTAAGTGCCATTAGGGATGTATCACACACTAAGTA
* * * *
93571523 CCATCCTCGTTACTTCACACACTAAGTGCCATTCAGGGATGTATCACATACTAAGTG
1 CCATCC-CGATACTTCGCACACTAAGTGCCATT-AGGGATGTATCACACACTAAGTA
**
93571580 CCATCCCGGATACTTCGCACGTTAAGTGCCA
1 CCATCCC-GATACTTCGCACACTAAGTGCCA
93571611 CATATAAATA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
55 2 0.03
56 28 0.38
57 43 0.59
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (55 bp):
CCATCCCGATACTTCGCACACTAAGTGCCATTAGGGATGTATCACACACTAAGTA
Found at i:93576437 original size:72 final size:72
Alignment explanation
Indices: 93576320--93576465 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
93576310 TTAATCAGTA
93576320 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAA
1 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAA
93576385 TGATCAG
66 TGATCAG
* *
93576392 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTTCCATATAAGGGAAAAA
1 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAA
93576457 TGATCAG
66 TGATCAG
93576464 AA
1 AA
93576466 TGTCATAAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (72 bp):
AAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAA
TGATCAG
Found at i:93577305 original size:49 final size:49
Alignment explanation
Indices: 93577227--93577410 Score: 208
Period size: 49 Copynumber: 3.7 Consensus size: 49
93577217 GTCACGTGTT
* *
93577227 TAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCATGTG
* * * * * *
93577276 TAGTACTAAATGCAGGCTACCATGCGTACCCGAAAACTGTGATC-AAGTGTG
1 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCGCA-TGTG
* * * ** *
93577327 TAGTAGTAAGTGTAGGCTACTACGTATACCAGATTATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCATGTG
93577376 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
93577411 GCTTCGGCTA
Statistics
Matches: 106, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
49 68 0.64
50 4 0.04
51 34 0.32
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCATGTG
Found at i:93577401 original size:100 final size:100
Alignment explanation
Indices: 93577222--93577405 Score: 287
Period size: 100 Copynumber: 1.8 Consensus size: 100
93577212 GTGAGGTCAC
* * * *
93577222 GTGTTTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACTAAAT
93577287 GCAGGCTACCATGCGTACCCGAAAACTGTGATCAA
66 GCAGGCTACCATGCGTACCCGAAAACTGTGATCAA
* * * *
93577322 GTGTGTAGTAGTAAGTGTAGGCTACTACGTATACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACTAAAT
*
93577387 GCAGGCTACTATGCGTACC
66 GCAGGCTACCATGCGTACC
93577406 AGATAGCTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACTAAAT
GCAGGCTACCATGCGTACCCGAAAACTGTGATCAA
Found at i:93580413 original size:15 final size:15
Alignment explanation
Indices: 93580393--93580447 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
93580383 GTATCTTGGG
93580393 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
93580408 TTTCTTTATTCT-GA
1 TTTCTTTATTCTGGA
*
93580422 GTTT-TCTA-TCTTGGA
1 -TTTCTTTATTC-TGGA
93580437 TTTCTTTATTC
1 TTTCTTTATTC
93580448 GATTTTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 20 0.61
16 2 0.06
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:93583251 original size:51 final size:49
Alignment explanation
Indices: 93583133--93583320 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
93583123 TGAGGTCATG
* *
93583133 TGTGTAGCACTAAGTGCAGGCTACTACGTGTACAAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
93583182 TGTGTAGTACTAAATGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
93583233 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
93583282 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
93583321 GCTTCGGCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 73 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:93583305 original size:100 final size:100
Alignment explanation
Indices: 93583132--93583315 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
93583122 GTGAGGTCAT
*
93583132 GTGTGTAGCACTAAGTGCAGGCTACTACGTGTACAAGATAATTGGTCGCATGTGTAGTACTAAAT
1 GTGTGTAGCACTAAGTGCAGGCTACTACGTATACAAGATAATTGGTCGCATGTGTAGTACTAAAT
*
93583197 GCAGGCTACTATGTGTACCCGAAAACTGTGATCAC
66 GCAGGCTACTATGCGTACCCGAAAACTGTGATCAC
* * * *
93583232 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGCACTAAGTGCAGGCTACTACGTATACAAGATAATTGGTCGCATGTGTAGTACTAAAT
*
93583297 GTAGGCTACTATGCGTACC
66 GCAGGCTACTATGCGTACC
93583316 AGATAGCTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGCACTAAGTGCAGGCTACTACGTATACAAGATAATTGGTCGCATGTGTAGTACTAAAT
GCAGGCTACTATGCGTACCCGAAAACTGTGATCAC
Found at i:93589657 original size:54 final size:55
Alignment explanation
Indices: 93589564--93589674 Score: 161
Period size: 54 Copynumber: 2.0 Consensus size: 55
93589554 NNNNGGACCT
* * *
93589564 TTGCCTTATAGTAACTCATCAATGCCATGTATTGACATGGTCTTACATGATTTCC
1 TTGCATTATAGTAACTCATCAATGCCATGCATTGACATGGTCTTACATGATATCC
* * *
93589619 TTGCATTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 TTGCATTATAGTAACTCATCAATGCCATGCATTGACATGGTCTTACATGATATCC
93589673 TT
1 TT
93589675 ATTTTACCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 40 0.80
55 10 0.20
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (55 bp):
TTGCATTATAGTAACTCATCAATGCCATGCATTGACATGGTCTTACATGATATCC
Found at i:93589916 original size:44 final size:44
Alignment explanation
Indices: 93589867--93589950 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
93589857 TCCTTAACCG
*
93589867 TCAATTCCTCCTTAA-ATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAATATG-CATGGTAT-AACCATGGACTTTTCCA
* *
93589911 TCAATTCTTCCTTAATTTGCATGGTATAACCATGGACTTT
1 TCAATTCCTCCTTAATATGCATGGTATAACCATGGACTTT
93589951 GAGATATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.06
44 31 0.89
45 2 0.06
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAATATGCATGGTATAACCATGGACTTTTCCA
Found at i:93605688 original size:40 final size:40
Alignment explanation
Indices: 93605611--93605787 Score: 166
Period size: 40 Copynumber: 4.4 Consensus size: 40
93605601 CTGTCCGGGC
* * * *
93605611 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT-TCCGGAT
*
93605651 TAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
* * *
93605691 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCC-GAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGA-T
* * * *
93605731 TAAGTCCCGAAGGCATTCGTACGAGTT-TTAAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATT-AATTCCGGAT
93605771 TAAGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
93605788 GTATGAGTTA
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.03
40 100 0.88
41 11 0.10
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
Found at i:93613938 original size:15 final size:15
Alignment explanation
Indices: 93613918--93613947 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93613908 CAAACTCTTG
93613918 TGATCAGTAAAAATA
1 TGATCAGTAAAAATA
93613933 TGATCAGTAAAAATA
1 TGATCAGTAAAAATA
93613948 CTTCAAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
TGATCAGTAAAAATA
Found at i:93616269 original size:41 final size:41
Alignment explanation
Indices: 93616226--93616359 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
93616216 GACCATGATT
*
93616226 CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATT
1 CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATC
** * ** **
93616267 CGATGAGGTA-TTGG-GT-ATA-TACTTACTTC-AGCAAGGC
1 CGATGAGACACTGGGTGTCATATTA-TTACTTCAAATAAATC
* *
93616304 CGATGAGACACTGGGTGTCAAATTATTACTTCAAAT-TATC
1 CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATC
*
93616344 CGATGAGGCACTGGGT
1 CGATGAGACACTGGGT
93616360 CCATATTGGT
Statistics
Matches: 69, Mismatches: 18, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
37 13 0.19
38 13 0.19
39 4 0.06
40 28 0.41
41 11 0.16
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCATATTATTACTTCAAATAAATC
Found at i:93621328 original size:32 final size:32
Alignment explanation
Indices: 93621291--93621354 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
93621281 CCAAACACTG
93621291 TGAGAATGACACGGGTGTACAAAAACCTACAC
1 TGAGAATGACACGGGTGTACAAAAACCTACAC
*
93621323 TGAGAATGACACGGGTGTACAAAATCCTACAC
1 TGAGAATGACACGGGTGTACAAAAACCTACAC
93621355 GACCGTGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (32 bp):
TGAGAATGACACGGGTGTACAAAAACCTACAC
Found at i:93621577 original size:17 final size:17
Alignment explanation
Indices: 93621557--93621598 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
93621547 TTATTTTTCT
93621557 TTTATTTTTAAGATTCA
1 TTTATTTTTAAGATTCA
*
93621574 TTTAATTTTAAGATTCA
1 TTTATTTTTAAGATTCA
*
93621591 TTTGTTTT
1 TTTATTTT
93621599 CCTTTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTATTTTTAAGATTCA
Found at i:93625222 original size:7 final size:7
Alignment explanation
Indices: 93625206--93625236 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
93625196 TAATAATGTT
*
93625206 ATATATA
1 ATATAAA
93625213 ATATAAA
1 ATATAAA
93625220 ATATAAA
1 ATATAAA
93625227 ATATAAA
1 ATATAAA
93625234 ATA
1 ATA
93625237 AATTAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:93627149 original size:37 final size:37
Alignment explanation
Indices: 93627099--93627177 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
93627089 TTATTACGAA
* * *
93627099 GTCTTACCTGGACATAATCTC-CACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CACACACGAAGTCATCGG
* *
93627136 GTCTTACCCGGACAAAATCCACACATGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
93627173 GTCTT
1 GTCTT
93627178 TAGAGCTCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCACACACGAAGTCATCGG
Found at i:93627373 original size:47 final size:47
Alignment explanation
Indices: 93627297--93627411 Score: 158
Period size: 47 Copynumber: 2.4 Consensus size: 47
93627287 CTTCGGGACT
* * * *
93627297 TATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
93627344 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
93627391 TATCACATATATACACTTTCA
1 TATCACATATATACACTTTCA
93627412 GCTATTAGGC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:93627420 original size:33 final size:33
Alignment explanation
Indices: 93627382--93627444 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
93627372 CACATCGGCC
*
93627382 ATTAGGCCTTATCACATATATACACTTTCAGCT
1 ATTAGGCCTTATCACACATATACACTTTCAGCT
*
93627415 ATTAGGCCTTATCGCACATATACACTTTCA
1 ATTAGGCCTTATCACACATATACACTTTCA
93627445 CATTCATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (33 bp):
ATTAGGCCTTATCACACATATACACTTTCAGCT
Found at i:93627473 original size:47 final size:47
Alignment explanation
Indices: 93627415--93627621 Score: 324
Period size: 47 Copynumber: 4.3 Consensus size: 47
93627405 ACTTTCAGCT
*
93627415 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCC
1 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
* * * *
93627462 ATTAAGCCTTATCACATATATATATACTTTCACATTCATCACATCGCGCT
1 ATTAGGCCTTATCAC--ACATATACACTTTCACATTCATCACATCG-GCC
*
93627512 ATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCC
1 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
*
93627559 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
1 ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
93627606 ATTAGGCCTTATCACA
1 ATTAGGCCTTATCACA
93627622 ATTTAGAATT
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
47 76 0.52
48 27 0.19
49 27 0.19
50 15 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
Found at i:93627526 original size:97 final size:94
Alignment explanation
Indices: 93627412--93627618 Score: 360
Period size: 97 Copynumber: 2.2 Consensus size: 94
93627402 TACACTTTCA
93627412 GCTATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC
1 GCTATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC
*
93627477 ATATATATATACTTTCACATTCATCACATCG
66 --ATATATACACTTTCACATTCATCACATCG
*
93627508 CGCTATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 -GCTATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCA
93627573 CATATATACACTTTCACATTCATCACATCG
65 CATATATACACTTTCACATTCATCACATCG
*
93627603 GCCATTAGGCCTTATC
1 GCTATTAGGCCTTATC
93627619 ACAATTTAGA
Statistics
Matches: 107, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
94 15 0.14
95 28 0.26
97 64 0.60
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (94 bp):
GCTATTAGGCCTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC
ATATATACACTTTCACATTCATCACATCG
Found at i:93633662 original size:47 final size:47
Alignment explanation
Indices: 93633550--93633884 Score: 510
Period size: 47 Copynumber: 7.1 Consensus size: 47
93633540 GAAATGATAG
93633550 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
93633599 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
93633646 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
93633693 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-AGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-TGTGA
*
93633740 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
93633787 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
93633834 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
93633881 TAAG
1 TAAG
93633885 TCCCGAAGGG
Statistics
Matches: 266, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 229 0.86
48 1 0.00
49 35 0.13
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:93634053 original size:37 final size:37
Alignment explanation
Indices: 93634003--93634338 Score: 645
Period size: 37 Copynumber: 9.1 Consensus size: 37
93633993 CCGAGCTCTA
93634003 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634040 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634077 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634114 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634151 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634188 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634225 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634262 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
* * *
93634299 AAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
93634336 AAG
1 AAG
93634339 CCCCTTGTCC
Statistics
Matches: 296, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 296 1.00
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.22
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
Found at i:93634372 original size:54 final size:54
Alignment explanation
Indices: 93634290--93634392 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
93634280 GTGGAGAGTA
* *
93634290 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGTAAGCCCCT
1 TGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAGCCCCT
* *
93634344 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAG
1 TGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAG
93634393 ACTTCGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (54 bp):
TGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTATGTCCAGGTAAGCCCCT
Found at i:93641292 original size:90 final size:90
Alignment explanation
Indices: 93641120--93641292 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 90
93641110 AATAAGATGC
* * * * * * *
93641120 CAATGCCATATCCTAGATATGGTCTTACATGGGATCACCATTCGATGCCAATGTCGTGTCCCAGG
1 CAATGCAATATCCCAGATATGGTCTTACATGGGAACACCATTCGATGCCAATGCCATATCCCAGA
* * *
93641185 CGTGGTCTTACATGGGATCTCATAT
66 CATGGTATTACACGGGATCTCATAT
* **
93641210 CAATGCAATATCCCAGATATGGTCTTACATGGTAACACCTATT-GATGCTGATGCCATATCCCAG
1 CAATGCAATATCCCAGATATGGTCTTACATGGGAACACC-ATTCGATGCCAATGCCATATCCCAG
* *
93641274 ATATGGTATTATACGGGAT
65 ACATGGTATTACACGGGAT
93641293 GTTATTAACC
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
90 64 0.96
91 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (90 bp):
CAATGCAATATCCCAGATATGGTCTTACATGGGAACACCATTCGATGCCAATGCCATATCCCAGA
CATGGTATTACACGGGATCTCATAT
Found at i:93648753 original size:17 final size:18
Alignment explanation
Indices: 93648726--93648759 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
93648716 AGTTAAATAT
93648726 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
93648744 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
93648760 TAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:93656995 original size:50 final size:50
Alignment explanation
Indices: 93656920--93657207 Score: 334
Period size: 50 Copynumber: 5.8 Consensus size: 50
93656910 GGTAAGACGC
** * *
93656920 CGATGCCATGTCCCAATTATGGTCTTAGACTGGCTTTCATATATCGGTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGT
* * *
93656970 CGATGCCATGTCCCATACATGGTCTTACAATGGCTCTCATATATTGGTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGT
* * *
93657020 CGATGCCATGTCCCAGACATGGTCTTCCACTGGCTCTCAAATATCGGTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGT
* * * * *
93657070 CGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCAT-TA-CGATGCC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTG-T
* * * * *
93657119 CG-TGCCATGTTCCAAACATAGTCTTACACTAGCTCTCAT-TA-CGATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGT
* *
93657166 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT
93657208 TACCCTAGTA
Statistics
Matches: 210, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
47 3 0.01
48 78 0.37
49 5 0.02
50 124 0.59
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (50 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGT
Found at i:93661361 original size:31 final size:32
Alignment explanation
Indices: 93661312--93661375 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
93661302 ATATTAAATA
*
93661312 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
93661343 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
93661375 A
1 A
93661376 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:93662017 original size:15 final size:15
Alignment explanation
Indices: 93661994--93662041 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
93661984 TATCAAATTT
93661994 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
93662009 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
93662024 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
93662038 ATAT
1 ATAT
93662042 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:93669941 original size:13 final size:13
Alignment explanation
Indices: 93669923--93669954 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
93669913 GGTTACACGC
93669923 TCGTGTGGGTAGG
1 TCGTGTGGGTAGG
93669936 TCGTGTGGGTAGG
1 TCGTGTGGGTAGG
93669949 TCGTGT
1 TCGTGT
93669955 AGTCACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.09, G:0.50, T:0.34
Consensus pattern (13 bp):
TCGTGTGGGTAGG
Found at i:93672879 original size:6 final size:6
Alignment explanation
Indices: 93672850--93672900 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
93672840 GAATTAGAAT
* * *
93672850 ATAAAA AT-TAA ATTAAA TTAAAA ATAAAA ATATTAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA--AAA ATAAAA ATAAAA
93672899 AT
1 AT
93672901 GGCTAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
8 6 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
ATAAAA
Found at i:93672886 original size:20 final size:20
Alignment explanation
Indices: 93672861--93672900 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
93672851 TAAAAATTAA
*
93672861 ATTAAATTAAAAATAAAAAT
1 ATTAAAATAAAAATAAAAAT
93672881 ATTAAAATAAAAATAAAAAT
1 ATTAAAATAAAAATAAAAAT
93672901 GGCTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
ATTAAAATAAAAATAAAAAT
Found at i:93675068 original size:16 final size:16
Alignment explanation
Indices: 93675047--93675078 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93675037 CGTGTAATGC
93675047 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
93675063 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
93675079 TCTTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCCTGAAA
Found at i:93676517 original size:29 final size:29
Alignment explanation
Indices: 93676475--93676621 Score: 158
Period size: 29 Copynumber: 5.2 Consensus size: 29
93676465 GTGGGCGTGA
* *
93676475 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * *
93676503 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
** *
93676532 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* *
93676561 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
*
93676590 ATATGAA--TGAGA-TGGGCCTAGTGGGCC
1 ATATGAAGGTGA-ATTGGGCCTAATGGGCC
93676617 ATATG
1 ATATG
93676622 CATGTATGTA
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
27 21 0.20
28 5 0.05
29 80 0.75
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAAGGTGAATTGGGCCTAATGGGCC
Found at i:93681015 original size:29 final size:29
Alignment explanation
Indices: 93680973--93681119 Score: 142
Period size: 29 Copynumber: 5.2 Consensus size: 29
93680963 GTGAGCATTA
* *
93680973 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * * *
93681001 ATATAAAGGTGATTTGGGACTAATAGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
* * *
93681030 ATATGAATGTGAATTGGGCATGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
*
93681059 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATGGGCC
*
93681088 ATACGAA--TGAGA-TGGGCC-AAGTGGGCC
1 ATATGAAGGTGA-ATTGGGCCTAA-TGGGCC
93681115 ATATG
1 ATATG
93681120 CATGTATGTA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 19 0.19
28 5 0.05
29 76 0.75
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (29 bp):
ATATGAAGGTGAATTGGGCCTAATGGGCC
Found at i:93697066 original size:6 final size:6
Alignment explanation
Indices: 93697057--93697081 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93697047 TAGATGTAGC
93697057 GGGAGA GGGAGA GGGAGA GGGAGA G
1 GGGAGA GGGAGA GGGAGA GGGAGA G
93697082 TCAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:93699543 original size:42 final size:42
Alignment explanation
Indices: 93699496--93699606 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
93699486 TAAGATTCCG
* *
93699496 TATAAGACCATATTC-GGGATATGGCCTCGGTATG-TGATTTCA
1 TATAAGACCATA-TCGGGGATATGGCATCGATATGAT-ATTTCA
* * *
93699538 TATAAGACCATGTCGGGGACATTGCATCGATATGATATTTCA
1 TATAAGACCATATCGGGGATATGGCATCGATATGATATTTCA
* *
93699580 TGTAAGACCATATCTGGGATATGGCAT
1 TATAAGACCATATCGGGGATATGGCAT
93699607 TGAAACGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.04
42 54 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TATAAGACCATATCGGGGATATGGCATCGATATGATATTTCA
Found at i:93713578 original size:31 final size:31
Alignment explanation
Indices: 93713535--93713598 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
93713525 CCTTTTCATA
*
93713535 TTTCATAATTCATAACACTGGGTCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
93713566 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
93713597 TT
1 TT
93713599 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:93713837 original size:24 final size:24
Alignment explanation
Indices: 93713810--93713932 Score: 214
Period size: 24 Copynumber: 5.2 Consensus size: 24
93713800 GGCCTACCCT
*
93713810 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
93713834 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
93713858 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
93713881 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
93713905 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
93713928 CTTTT
1 CTTTT
93713933 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 45 0.48
24 49 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:93713866 original size:23 final size:23
Alignment explanation
Indices: 93713812--93713931 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
93713802 CCTACCCTCT
*
93713812 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93713835 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
93713859 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
93713882 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
93713906 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93713929 TTT
1 TTT
93713932 TGCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:93713933 original size:47 final size:47
Alignment explanation
Indices: 93713812--93713933 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
93713802 CCTACCCTCT
* *
93713812 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
93713859 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
93713906 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
93713934 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:93714020 original size:20 final size:20
Alignment explanation
Indices: 93713978--93714047 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
93713968 GCATTTATGA
*
93713978 ACATCTCATGTGCATAT-AT
1 ACATATCATGTGCATATCAT
93713997 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
93714017 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
93714037 ACATATCATGT
1 ACATATCATGT
93714048 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:93714126 original size:25 final size:24
Alignment explanation
Indices: 93714084--93714131 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
93714074 ATATATAAAC
* * *
93714084 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
93714109 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
93714132 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:93723750 original size:52 final size:50
Alignment explanation
Indices: 93723674--93723776 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 50
93723664 AAGAAAGGAA
93723674 GGGGAAGAGCTTGAGAAAATCGGCTATGGTGGTTTGCTAGACTAAGGTAT
1 GGGGAAGAGCTTGAGAAAATCGGCTATGGTGGTTTGCTAGACTAAGGTAT
93723724 GGGGAAAGAGCTTGGAGAAAATCGGCTATGGTGGTTTGCTAGACTAAGGTAT
1 GGGG-AAGAGCTT-GAGAAAATCGGCTATGGTGGTTTGCTAGACTAAGGTAT
93723776 G
1 G
93723777 TTTGATGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 4 0.08
51 8 0.16
52 39 0.76
ACGTcount: A:0.28, C:0.10, G:0.37, T:0.25
Consensus pattern (50 bp):
GGGGAAGAGCTTGAGAAAATCGGCTATGGTGGTTTGCTAGACTAAGGTAT
Found at i:93724996 original size:40 final size:40
Alignment explanation
Indices: 93724941--93725158 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
93724931 TGGATGATAA
* * *
93724941 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
93724981 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
93725021 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
93725061 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
93725101 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
93725141 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
93725159 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:93733880 original size:30 final size:30
Alignment explanation
Indices: 93733846--93733906 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
93733836 TCCTTAACTC
93733846 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
93733876 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
93733906 A
1 A
93733907 GGCTCGGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:93735643 original size:28 final size:28
Alignment explanation
Indices: 93735603--93735672 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
93735593 ATAGTAAGTC
*
93735603 CGCACACTTAGTGCT-TAATAATGAAACT
1 CGCACACTTAGTGCTAT-ACAATGAAACT
*
93735631 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATGAAACT
*
93735659 CGCACACATAGTGC
1 CGCACACTTAGTGC
93735673 CAATCTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATGAAACT
Found at i:93748767 original size:27 final size:26
Alignment explanation
Indices: 93748719--93748778 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
93748709 GCGAGGCTGC
*
93748719 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
93748746 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
93748772 TAGATAT
1 CAGATAT
93748779 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:93755901 original size:25 final size:24
Alignment explanation
Indices: 93755870--93755927 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
93755860 TTTTTCTCCT
* *
93755870 AAATTTTAATTTTATTTAATTATTT
1 AAATTTTAA-TTTATTGAATTATTA
*
93755895 AATTTTTCAATTTATTGAATTATTA
1 AAATTTT-AATTTATTGAATTATTA
93755920 AAATTTTA
1 AAATTTTA
93755928 TATTAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.89
26 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATTTTAATTTATTGAATTATTA
Found at i:93757707 original size:37 final size:37
Alignment explanation
Indices: 93757666--93757741 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
93757656 AAATTATTAT
93757666 GTTAGCTTAATAATGATATGAATATATTTCTAATAAA
1 GTTAGCTTAATAATGATATGAATATATTTCTAATAAA
93757703 GTTAGCTTAATAATGATATGAATATATTTCTAATAAA
1 GTTAGCTTAATAATGATATGAATATATTTCTAATAAA
93757740 GT
1 GT
93757742 ATGCAAATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (37 bp):
GTTAGCTTAATAATGATATGAATATATTTCTAATAAA
Found at i:93758818 original size:18 final size:18
Alignment explanation
Indices: 93758795--93758834 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
93758785 AGAATTCGGT
93758795 TTAATTCTTATAAAAAAA
1 TTAATTCTTATAAAAAAA
* *
93758813 TTAATTTTTATAAAATAA
1 TTAATTCTTATAAAAAAA
93758831 TTAA
1 TTAA
93758835 AGTGCACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATTCTTATAAAAAAA
Found at i:93759870 original size:39 final size:39
Alignment explanation
Indices: 93759818--93759942 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
93759808 GACTTTAGCT
* * * * * *
93759818 CGGACATATTTCCAGCACGTAGCCTGCAGACCTTAAGTC
1 CGGATATAATTCCAACACATAGCCTGCGGACCCTAAGTC
*
93759857 CGGATATAATTCCATCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAACACATAGCCTGCGGACCCTAAGTC
93759896 CGGATATAATTCCAACACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAACACATAGCCTGCGGACCCTAAGTC
93759935 CGGATATA
1 CGGATATA
93759943 CATCACTGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (39 bp):
CGGATATAATTCCAACACATAGCCTGCGGACCCTAAGTC
Found at i:93765831 original size:31 final size:31
Alignment explanation
Indices: 93765790--93765853 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
93765780 CCTTTTCATA
*
93765790 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
93765821 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
93765852 TT
1 TT
93765854 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:93766104 original size:24 final size:24
Alignment explanation
Indices: 93766067--93766233 Score: 250
Period size: 24 Copynumber: 7.1 Consensus size: 24
93766057 GCCTTGCCTC
* *
93766067 TTAATAACTAGGGCAAAAGCCCTT
1 TTAATAACTGGGGCATAAGCCCTT
*
93766091 TTTATAACTGGGGCATAAGCCC-T
1 TTAATAACTGGGGCATAAGCCCTT
*
93766114 TTAATAACTGGGGCGTAAGCCCTT
1 TTAATAACTGGGGCATAAGCCCTT
*
93766138 TTGATAACTGGGGCATAAGCCCTT
1 TTAATAACTGGGGCATAAGCCCTT
*
93766162 TTGATAACTGGGGCATAAGCCC-T
1 TTAATAACTGGGGCATAAGCCCTT
*
93766185 TTAATAACTAGGGCATAAGCCC-T
1 TTAATAACTGGGGCATAAGCCCTT
93766208 TTAATAACTGGGGCATAAGCCCTT
1 TTAATAACTGGGGCATAAGCCCTT
93766232 TT
1 TT
93766234 TCACTTCCTC
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 64 0.49
24 67 0.51
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
TTAATAACTGGGGCATAAGCCCTT
Found at i:93766118 original size:47 final size:47
Alignment explanation
Indices: 93766067--93766234 Score: 257
Period size: 47 Copynumber: 3.6 Consensus size: 47
93766057 GCCTTGCCTC
* *
93766067 TTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCT
* *
93766114 TTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTT
1 TTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC-T
* * *
93766162 TTGATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCT
93766208 TTAATAACTGGGGCATAAGCCCTTTTT
1 TTAATAACTGGGGCATAAGCCCTTTTT
93766235 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 22 0.20
47 66 0.61
48 21 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCT
Found at i:93766124 original size:23 final size:23
Alignment explanation
Indices: 93766067--93766232 Score: 242
Period size: 23 Copynumber: 7.1 Consensus size: 23
93766057 GCCTTGCCTC
* *
93766067 TTAATAACTAGGGCAAAAGCCCTT
1 TTAATAACTGGGGCATAAGCCC-T
*
93766091 TTTATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
*
93766114 TTAATAACTGGGGCGTAAGCCCTT
1 TTAATAACTGGGGCATAAGCCC-T
*
93766138 TTGATAACTGGGGCATAAGCCCTT
1 TTAATAACTGGGGCATAAGCCC-T
*
93766162 TTGATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
*
93766185 TTAATAACTAGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
93766208 TTAATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCATAAGCCCT
93766231 TT
1 TT
93766233 TTCACTTCCT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
23 67 0.51
24 64 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTAATAACTGGGGCATAAGCCCT
Found at i:93766308 original size:20 final size:20
Alignment explanation
Indices: 93766283--93766349 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
93766273 TTATGAATAC
*
93766283 ATCATGTGCATATCATAAAT
1 ATCATGTGCATATCATACAT
93766303 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93766323 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93766343 ACCATGT
1 ATCATGT
93766350 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:93766414 original size:25 final size:25
Alignment explanation
Indices: 93766386--93766433 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
93766376 TTACATAAAC
*
93766386 CCTAGGGG-TATAATGGTCATTTTTA
1 CCTAGGGGCTA-AACGGTCATTTTTA
93766411 CCTAGGGGCTAAACGGTCATTTT
1 CCTAGGGGCTAAACGGTCATTTT
93766434 CATGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCTAAACGGTCATTTTTA
Found at i:93773402 original size:31 final size:31
Alignment explanation
Indices: 93773361--93773424 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
93773351 CCTTTTCATA
*
93773361 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
93773392 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
93773423 TT
1 TT
93773425 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:93773698 original size:23 final size:23
Alignment explanation
Indices: 93773639--93773805 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
93773629 CCTTGCCTCT
*
93773639 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
93773662 TATTTATAACTGGGGCATAAGCCC
1 T-TTAATAACTGGGGCATAAGCCC
* *
93773686 TTTAATAATTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
93773709 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
93773733 TTTTGATAACTGAGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
93773757 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93773780 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
93773803 TTT
1 TTT
93773806 TTCACTTCCT
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 67 0.51
24 64 0.49
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:93773699 original size:47 final size:46
Alignment explanation
Indices: 93773639--93773806 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 46
93773629 CCTTGCCTCT
*
93773639 TTTAATAACTGGGGCAAAAGCCCTATTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCT-TTTATAACTGGGGCATAAGCCC
* *
93773686 TTTAATAATTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCC
* * *
93773733 TTTTGATAACTGAGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCC
93773780 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
93773807 TCACTTCCTC
Statistics
Matches: 108, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
46 27 0.25
47 59 0.55
48 22 0.20
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCC
Found at i:93773877 original size:20 final size:20
Alignment explanation
Indices: 93773854--93773929 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
93773844 ATTTATGAAT
93773854 TATCATGTGCATATCAAACA
1 TATCATGTGCATATCAAACA
*
93773874 TATCATGTGCATATCATACA
1 TATCATGTGCATATCAAACA
* *
93773894 TGTCATGTGCATATCATACA
1 TATCATGTGCATATCAAACA
*
93773914 TACCATGT-C-TATCAAA
1 TATCATGTGCATATCAAA
93773930 ATCCCATGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
18 6 0.12
19 1 0.02
20 44 0.86
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
TATCATGTGCATATCAAACA
Found at i:93773886 original size:11 final size:11
Alignment explanation
Indices: 93773854--93773910 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
93773844 ATTTATGAAT
93773854 TATCATGTGCA
1 TATCATGTGCA
**
93773865 TATCA--AACA
1 TATCATGTGCA
93773874 TATCATGTGCA
1 TATCATGTGCA
*
93773885 TATCA--TACA
1 TATCATGTGCA
*
93773894 TGTCATGTGCA
1 TATCATGTGCA
93773905 TATCAT
1 TATCAT
93773911 ACATACCATG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 14 0.41
11 20 0.59
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:93773990 original size:25 final size:25
Alignment explanation
Indices: 93773958--93774005 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93773948 ATACATAAAC
* * *
93773958 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
93773983 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
93774006 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:93774284 original size:17 final size:17
Alignment explanation
Indices: 93774262--93774302 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
93774252 TTTACCCAAA
93774262 TGGGCCCGAAAGCCTAT
1 TGGGCCCGAAAGCCTAT
93774279 TGGGCCCGAAAGCCTAT
1 TGGGCCCGAAAGCCTAT
93774296 TGGGCCC
1 TGGGCCC
93774303 TATTGCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.17
Consensus pattern (17 bp):
TGGGCCCGAAAGCCTAT
Found at i:93777063 original size:39 final size:39
Alignment explanation
Indices: 93777020--93777135 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
93777010 CTAGACATAT
** * * *
93777020 TTCCAGCATGTAGCCTGCAGACCTTAAGTCCGAATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
93777059 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
93777098 TTCCAGCACATAGCTTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
93777136 CATCACTGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:93781160 original size:44 final size:44
Alignment explanation
Indices: 93781097--93781187 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
93781087 AGCAGTTGCA
93781097 TGACTTTGAAAATTCACCAAAAATTTTGTAAGTTGAATTAAATT
1 TGACTTTGAAAATTCACCAAAAATTTTGTAAGTTGAATTAAATT
93781141 TGACTTTGAAAATTCACCAAAAATTTTGTAAGTTGAATTAAATT
1 TGACTTTGAAAATTCACCAAAAATTTTGTAAGTTGAATTAAATT
93781185 TGA
1 TGA
93781188 AATAAATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (44 bp):
TGACTTTGAAAATTCACCAAAAATTTTGTAAGTTGAATTAAATT
Found at i:93800248 original size:12 final size:12
Alignment explanation
Indices: 93800231--93800255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93800221 TAGTTAAACA
93800231 TAACACCAATTG
1 TAACACCAATTG
93800243 TAACACCAATTG
1 TAACACCAATTG
93800255 T
1 T
93800256 GTTTGGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (12 bp):
TAACACCAATTG
Found at i:93806008 original size:30 final size:30
Alignment explanation
Indices: 93805974--93806033 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
93805964 CTTTAATACG
93805974 AACTTTAGAAAAATTACAATTTTGCCCCTA
1 AACTTTAGAAAAATTACAATTTTGCCCCTA
* * * * *
93806004 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAGAAAAATTACAATTTTGCCCCTA
93806034 GGCTTGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAGAAAAATTACAATTTTGCCCCTA
Found at i:93806873 original size:20 final size:20
Alignment explanation
Indices: 93806848--93806893 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
93806838 GATATTACAA
93806848 GTGTGGCTTGGGAAACGCCC
1 GTGTGGCTTGGGAAACGCCC
*
93806868 GTGTGGCTTGGGACACGCCC
1 GTGTGGCTTGGGAAACGCCC
93806888 GTGTGG
1 GTGTGG
93806894 GCCGACGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.24, G:0.43, T:0.22
Consensus pattern (20 bp):
GTGTGGCTTGGGAAACGCCC
Found at i:93808565 original size:48 final size:48
Alignment explanation
Indices: 93808509--93808618 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 48
93808499 GTCCCAGACG
* * * * *
93808509 TGGTCTTACATGA-AATCATATATGGATGCCAATGTCATATTCTAGATA
1 TGGTCTTACATGACAA-CATATATCGATACCAATGCCATATCCTAGAAA
* *
93808557 TGGTCTTACATGGGACCACATATATCGATACCAATGCCATGTCCTAGAAA
1 TGGTCTTACAT--GACAACATATATCGATACCAATGCCATATCCTAGAAA
93808607 TGGTCTTACATG
1 TGGTCTTACATG
93808619 GGATCACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
48 12 0.23
50 39 0.75
51 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (48 bp):
TGGTCTTACATGACAACATATATCGATACCAATGCCATATCCTAGAAA
Found at i:93808591 original size:50 final size:50
Alignment explanation
Indices: 93808525--93808630 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
93808515 TACATGAAAT
* * * * *
93808525 CATATATGGATGCCAATGTCATATTCTAGATATGGTCTTACATGGGACCA
1 CATATATCGATACCAATGCCATATCCTAGAAATGGTCTTACATGGGACCA
* *
93808575 CATATATCGATACCAATGCCATGTCCTAGAAATGGTCTTACATGGGATCA
1 CATATATCGATACCAATGCCATATCCTAGAAATGGTCTTACATGGGACCA
93808625 CATATA
1 CATATA
93808631 ACCCTAATGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (50 bp):
CATATATCGATACCAATGCCATATCCTAGAAATGGTCTTACATGGGACCA
Done.