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 168 of 297
Found at i:56595792 original size:50 final size:50
Alignment explanation
Indices: 56595703--56596072 Score: 293
Period size: 50 Copynumber: 7.6 Consensus size: 50
56595693 AGGGTAAGAT
* * *
56595703 GCCGACGCTATGTCCCAGACATGGTCTTACACTGACTCTCATATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* ** * * *
56595753 GCTGACACCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* * ** *
56595802 TACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACCTGTTG-G
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* * * *
56595852 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCA----A
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATTGTG
* * * * * *
56595898 GCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTTTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* * * * * *
56595948 GTCGATGCCATGTCCCAGACATGGCCTTACACTAGTTCTCGTCTCA-T-T-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATTGTG
* *
56595996 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-TGTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
**
56596044 GTTGATG-CATGTCCCAGACAT-GTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
56596073 TTAGTACACA
Statistics
Matches: 259, Mismatches: 50, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
45 31 0.12
46 11 0.04
47 19 0.07
48 45 0.17
49 2 0.01
50 151 0.58
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
Found at i:56595952 original size:95 final size:96
Alignment explanation
Indices: 56595703--56596083 Score: 350
Period size: 95 Copynumber: 3.9 Consensus size: 96
56595693 AGGGTAAGAT
* * * **
56595703 GCCGACGCTATGTCCCAGACATGGTCTTACACTGACTCTCATATATTGTGG-CTGACACCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA-TG-GGTC-GATGCCATGTC
* * * *
56595767 CCAGACATGGTCTTACACTGGCT-CTCATCTGTCGGTA
63 CCAGACATGGTCTTACACTAG-TACACA--TATC-ATA
* *
56595804 -CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACCTGT-TGGTGTCGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--TATATGG-GTCGATGCCATGTC
56595867 CCAGACATGGTCTTACACT-G-ACACATATCA-A
63 CCAGACATGGTCTTACACTAGTACACATATCATA
* * * *
56595898 GCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTTTCATATCTCGAGGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT-G-GGTCGATGCCATGTCC
* * * * * *
56595963 CAGACATGGCCTTACACTAGTTCTCGTCTCATT
64 CAGACATGGTCTTACACTAGTACACATATCATA
* * *
56595996 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTTGTTGATG-CATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG-GGTCGATGCCATGTCCC
*
56596059 AGACAT-GTCTTACATTAGTACACAT
65 AGACATGGTCTTACACTAGTACACAT
56596084 GTCACCCAAA
Statistics
Matches: 234, Mismatches: 34, Indels: 31
0.78 0.11 0.10
Matches are distributed among these distances:
93 2 0.01
94 16 0.07
95 83 0.35
96 12 0.05
97 7 0.03
98 42 0.18
99 2 0.01
100 67 0.29
101 1 0.00
102 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGGGTCGATGCCATGTCCCA
GACATGGTCTTACACTAGTACACATATCATA
Found at i:56596055 original size:145 final size:145
Alignment explanation
Indices: 56595702--56596070 Score: 381
Period size: 145 Copynumber: 2.5 Consensus size: 145
56595692 TAGGGTAAGA
* * * **
56595702 TGCCGACGCTATGTCCCAGACATGGTCTTACACTGACTCTCATATATTGTGGCTGACACCATGTC
1 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-TGTAGCTGA-TGCATGTC
* * * * *
56595767 CCAGACATGGTCTTACACTGGCTCTCATCTGTCGGTACCGATGCCATGTCCCAGACATAGTCTTA
63 CCAGACATGGTCTTAAACTAGCTCTCATATCTCGGTA-CGATGCCATGTCCCAGACATAGCCTTA
* **
56595832 CACTGGCTCTCACCTGTTGG
127 CACTAGCTCTCACCTCAT-G
* * * * ** *
56595852 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCAAGCCGATGCCATGTCCC
1 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCTGATG-CATGTCCC
* *
56595914 AGACATGGTCTTAAACTAGCTTTCATATCTCGAGGT-CGATGCCATGTCCCAGACATGGCCTTAC
65 AGACATGGTCTTAAACTAGCTCTCATATCTC--GGTACGATGCCATGTCCCAGACATAGCCTTAC
* **
56595978 ACTAGTTCTCGTCTCAT-
128 ACTAGCTCTCACCTCATG
* *
56595995 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTTGTTGATGCATGTCCCA
1 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCTGATGCATGTCCCA
56596060 GACAT-GTCTTA
66 GACATGGTCTTA
56596071 CATTAGTACA
Statistics
Matches: 179, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
143 32 0.18
144 7 0.04
145 94 0.53
146 8 0.04
147 3 0.02
148 4 0.02
150 31 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (145 bp):
TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCTGATGCATGTCCCA
GACATGGTCTTAAACTAGCTCTCATATCTCGGTACGATGCCATGTCCCAGACATAGCCTTACACT
AGCTCTCACCTCATG
Found at i:56598361 original size:48 final size:48
Alignment explanation
Indices: 56598229--56598496 Score: 195
Period size: 48 Copynumber: 5.6 Consensus size: 48
56598219 CTCATATTGG
* * * * * * *
56598229 TGCCATGTCCCAGACATGGTCTTATACGA-AATCACGTAACGATGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCGGTGCTGA
* * * * * * * *
56598277 AGCCATATCCCTAATATGGTCTTATAC-GGGATCACATATTGGTGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCGGTGCTGA
*
56598325 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGT-C-GA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC--GGTGCTGA
* * *** *
56598373 TGCCATGTCGCAGACATGGTCTTACACTAGCACACATATCAACGTTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGGTGCTGA
* * * * *
56598421 TGCCATGTCCCAAACATGGTCTTACA-TGGGATCTCATCTCGGATGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCGG-TGCTGA
*
56598470 TGCCATGTCCCAGACATGGTCTTACAC
1 TGCCATGTCCCAAACATGGTCTTACAC
56598497 GGGATCTCAT
Statistics
Matches: 173, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
47 3 0.02
48 137 0.79
49 31 0.18
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGGTGCTGA
Found at i:56603546 original size:20 final size:19
Alignment explanation
Indices: 56603510--56603560 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
56603500 AAGGGCTATT
*
56603510 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
56603529 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
56603549 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
56603561 GTTACAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:56603737 original size:17 final size:17
Alignment explanation
Indices: 56603705--56603737 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
56603695 TTAATTATAG
56603705 AATGTATTAAATAATGT
1 AATGTATTAAATAATGT
56603722 AATG-ATTAAATGAATG
1 AATGTATTAAAT-AATG
56603738 AATTTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AATGTATTAAATAATGT
Found at i:56604784 original size:13 final size:13
Alignment explanation
Indices: 56604766--56604841 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
56604756 AGTTCTTCAT
56604766 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
56604779 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
56604792 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
56604805 TGC-TTTGAGAAG
1 TGCTTTTGAAAAG
** *
56604817 TATTTTTGAGAAG
1 TGCTTTTGAAAAG
*
56604830 TGCTTTGGAAAA
1 TGCTTTTGAAAA
56604842 ATTTAAGTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
12 7 0.14
13 44 0.86
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:56609352 original size:7 final size:7
Alignment explanation
Indices: 56609340--56609365 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56609330 CCATTCCTAA
56609340 TCATCCC
1 TCATCCC
56609347 TCATCCC
1 TCATCCC
56609354 TCATCCC
1 TCATCCC
56609361 TCATC
1 TCATC
56609366 ATTTTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:56617422 original size:16 final size:17
Alignment explanation
Indices: 56617403--56617439 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
56617393 ACTAAAAGGT
56617403 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
56617419 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
56617436 TAAA
1 TAAA
56617440 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:56618488 original size:27 final size:27
Alignment explanation
Indices: 56618457--56618540 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
56618447 TAGTTTACCA
** *
56618457 AATTACCAAAGTACCCCCGATTTATAG
1 AATTACCAATCTACCCTCGATTTATAG
**
56618484 AATTACCGCTCTACCCTCGATTTATAG
1 AATTACCAATCTACCCTCGATTTATAG
* *
56618511 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCAATCTACCCTCGATTTATAG
56618538 AAT
1 AAT
56618541 ACTTTAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACCAATCTACCCTCGATTTATAG
Found at i:56618611 original size:28 final size:28
Alignment explanation
Indices: 56618547--56618625 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 28
56618537 GAATACTTTA
*
56618547 ATTTACAAAATTACTAAAATA-CCCCTG
1 ATTTGCAAAATTACTAAAATACCCCCTG
*
56618574 GTTTGCAAAATTACTAAAATACCCCCTG
1 ATTTGCAAAATTACTAAAATACCCCCTG
* *
56618602 ATTTGTAAAATTACTGAAATACCC
1 ATTTGCAAAATTACTAAAATACCC
56618626 TCAACTTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 19 0.41
28 27 0.59
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (28 bp):
ATTTGCAAAATTACTAAAATACCCCCTG
Found at i:56618639 original size:28 final size:28
Alignment explanation
Indices: 56618553--56618653 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
56618543 TTTAATTTAC
*** *
56618553 AAAATTACTAAAATA-CCCCTGGTTTGC
1 AAAATTACTAAAATACCCCCTAACTTGT
* *
56618580 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTAACTTGT
* *
56618608 AAAATTACTGAAATACCCTC-AACTTGT
1 AAAATTACTAAAATACCCCCTAACTTGT
* *
56618635 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
56618654 TCGATTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 20 0.32
28 43 0.68
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTAACTTGT
Found at i:56618679 original size:27 final size:27
Alignment explanation
Indices: 56618649--56618752 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
56618639 ATTACCAAAG
*
56618649 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
56618676 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * * *
56618703 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
56618730 TACCCTCGA-TTAT-GAAATTACTG
1 TACCCTCGATTTATAG-AATTACTG
56618753 AAATACCCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.15
27 57 0.85
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:56618802 original size:27 final size:26
Alignment explanation
Indices: 56618772--56618923 Score: 119
Period size: 27 Copynumber: 5.7 Consensus size: 26
56618762 TATAGGGTAG
*
56618772 AATTACCAAAACACTCCTAGTTTGTAA
1 AATTACCAAAATAC-CCTAGTTTGTAA
* *
56618799 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* * *
56618826 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
**
56618853 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATA-CCCTAG-TTTGTAA
* *
56618880 AATTA-CAGAAATACCCTTGATTTGTAG
1 AATTACCA-AAATACCCTAG-TTTGTAA
* *
56618907 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
56618924 TGTAGGATGA
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
26 9 0.09
27 85 0.85
28 6 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:56618883 original size:54 final size:54
Alignment explanation
Indices: 56618547--56618922 Score: 160
Period size: 54 Copynumber: 6.9 Consensus size: 54
56618537 GAATACTTTA
** * *
56618547 ATTTACAAAATTACTA-AAATACCC-CTGGTTTGCAAAATTACTAAAATACCCCCTG
1 ATTTACAAAATTAC-AGAAATACCCTC-AATTTGTAAAATTACCAAAATA-CCCCTG
** * * *
56618602 ATTTGTAAAATTACTGAAATACCCTCAACTTGTAAAAATTACCAAAGTA-CCCTCG
1 ATTTACAAAATTACAGAAATACCCTCAATTTGT-AAAATTACCAAAATACCCCT-G
* * *** * * * ***** *
56618657 ATTTATAGAATTACTA-TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAAAATTAC-AGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
* *** * **
56618711 ATTTACAAAATTACCGTTTTACCCTCGATTATG--AAATTACTGAAATACCCCT-
1 ATTTACAAAATTACAGAAATACCCTCAATT-TGTAAAATTACCAAAATACCCCTG
**** * * * *
56618763 ATAGGGTAGAATTACCA-AAACACTCCT-AGTTTGTAAAATTACCAAAATACCACTG
1 AT-TTACAAAATTA-CAGAAATAC-CCTCAATTTGTAAAATTACCAAAATACCCCTG
* ***
56618818 GTTTGTGAAATTATC-GAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
1 ATTTACAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
** * * *
56618872 ATTTACAAAATTACAGAAATACCCTTGATTTGTAGATTTACCAAAACACCC
1 ATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
56618923 TTGTAGGATG
Statistics
Matches: 237, Mismatches: 67, Indels: 35
0.70 0.20 0.10
Matches are distributed among these distances:
52 4 0.02
53 28 0.12
54 139 0.59
55 52 0.22
56 14 0.06
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
ATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
Found at i:56618986 original size:27 final size:27
Alignment explanation
Indices: 56618943--56619016 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
56618933 AAATGACTAA
*
56618943 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
56618970 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
56618997 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
56619017 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:56619888 original size:52 final size:52
Alignment explanation
Indices: 56619808--56619956 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
56619798 GAAGAAGTGC
* *
56619808 AAAAGGGTTTATGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
56619860 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
56619912 AAAAGGGCTT-TGCCCCAGTTTACCAAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
56619957 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 9 0.10
51 24 0.26
52 59 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:56619933 original size:25 final size:26
Alignment explanation
Indices: 56619808--56619956 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
56619798 GAAGAAGTGC
*
56619808 AAAAGGGTTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
56619834 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
56619860 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
56619886 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
56619912 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATCG
56619937 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56619957 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.28
26 81 0.72
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:56620160 original size:42 final size:42
Alignment explanation
Indices: 56620101--56620192 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
56620091 TAGTCTCCCC
* *
56620101 AAATGGGCTTGCATACATTCATTG-GTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAG-ATTACATGTGATATTG
56620143 AAATGGGCTTGCATACATCCATTGAGATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAGATTACATGTGATATTG
56620185 AAATGGGC
1 AAATGGGC
56620193 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGAGATTACATGTGATATTG
Found at i:56620293 original size:31 final size:31
Alignment explanation
Indices: 56620207--56620299 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
56620197 GGGCCATACC
* * *
56620207 ATTTATAGTAAAGGCTTCGACCCAATGATATG
1 ATTTAT-GAAAAGGCTTCGGCCCAGTGATATG
56620239 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
56620270 ATTTATGAAAAGGCTTCGGCCCAGT-ATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
56620300 TTAAGACTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 5 0.09
31 47 0.81
32 6 0.10
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCGGCCCAGTGATATG
Found at i:56632712 original size:79 final size:79
Alignment explanation
Indices: 56632614--56632795 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 79
56632604 TCCTCGTTCA
* * *
56632614 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
56632677 AT-TTAGTAACTCGCAGC
64 ATATT-GTAACTCGCA-C
* **
56632694 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
56632758 ATTGTCACTTGCAC
66 ATTGTAACTCGCAC
*
56632772 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56632796 CATCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 15 0.17
79 59 0.66
80 15 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATTGTAACTCGCAC
Found at i:56632729 original size:39 final size:39
Alignment explanation
Indices: 56632614--56632795 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 39
56632604 TCCTCGTTCA
* *
56632614 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAC
* *
56632653 AATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAGC
1 AA-TGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA-C
*
56632694 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* * *
56632732 AAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAACTCGCAC
*
56632772 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56632796 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 3 0.02
39 51 0.41
40 62 0.50
41 8 0.06
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
Found at i:56633220 original size:59 final size:59
Alignment explanation
Indices: 56633123--56633237 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
56633113 GAGCATCGAA
56633123 AAGAGGAACACAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGT
1 AAGAGGAACACAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGT
* *
56633182 AAGATGAACACAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCTCATA
1 AAGAGGAACACAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATA
56633238 CATGCAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (59 bp):
AAGAGGAACACAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGT
Found at i:56633544 original size:182 final size:182
Alignment explanation
Indices: 56633238--56633602 Score: 624
Period size: 182 Copynumber: 2.0 Consensus size: 182
56633228 AAGTCTCATA
* *
56633238 CATGCAAAAATCATGCATCAACACCACATATTAGCTAATTTCTTGCCCTTGACCGAATATGCATG
1 CATGCAAAAATCATGCATCAACACAACATATTAGCTAATTTCTTCCCCTTGACCGAATATGCATG
*
56633303 TCCATTTTTGGGGTCGATTTCAACACTTAATACACACATGTACACACTAGTAAAGCATCCTCCCC
66 TCCATTTTTGGGGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCCC
** *
56633368 CTTTTCATCAATTTAACACATGCATTGCTCATTAACATG-CAAAGTTACATT
131 CTTCCCATCAATTTAACACATGCATTGCTCATTAACATGTAAAAGTTACATT
*
56633419 CATGCAAAAATCATGCATCAACACAACATATTAGCTAATTTCTTTCCCCTTGGCCGAATATGCAT
1 CATGCAAAAATCATGCATCAACACAACATATTAGCTAATTTC-TTCCCCTTGACCGAATATGCAT
* *
56633484 GTCTATTTTTGGGGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCTC
65 GTCCATTTTTGGGGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCC
*
56633549 CCTTCCCATCGATTTAACACATGCATTGCTCATTAACATGTAAAAGTTACATT
130 CCTTCCCATCAATTTAACACATGCATTGCTCATTAACATGTAAAAGTTACATT
56633602 C
1 C
56633603 GGCCTTAGCA
Statistics
Matches: 172, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
181 41 0.24
182 119 0.69
183 12 0.07
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (182 bp):
CATGCAAAAATCATGCATCAACACAACATATTAGCTAATTTCTTCCCCTTGACCGAATATGCATG
TCCATTTTTGGGGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCCC
CTTCCCATCAATTTAACACATGCATTGCTCATTAACATGTAAAAGTTACATT
Found at i:56633700 original size:37 final size:40
Alignment explanation
Indices: 56633650--56633728 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
56633640 TTTAGCAACC
*
56633650 AATGCACATATGTGCT-CAC-TC-AAAAATGCTAAAAAGG
1 AATGCACATATGTGCTACACAACAAAAAATGCTAAAAAGG
56633687 AATGCACATATGTGCTCACACAACAAAAAATGCTAAAAAGG
1 AATGCACATATGTGCT-ACACAACAAAAAATGCTAAAAAGG
56633728 A
1 A
56633729 GGTTCAAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 16 0.43
39 3 0.08
40 1 0.03
41 17 0.46
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (40 bp):
AATGCACATATGTGCTACACAACAAAAAATGCTAAAAAGG
Found at i:56635049 original size:16 final size:15
Alignment explanation
Indices: 56635008--56635049 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
56634998 AAATATGAAT
*
56635008 TATATATGCTGAAATG
1 TATATATG-TGAAATA
56635024 TATA-ATGTGATAATA
1 TATATATGTGA-AATA
56635039 TATATATGTGA
1 TATATATGTGA
56635050 GCCGAATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (15 bp):
TATATATGTGAAATA
Found at i:56636659 original size:13 final size:14
Alignment explanation
Indices: 56636641--56636675 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
56636631 GAATGACAAA
56636641 ATGTTTGGCTAT-G
1 ATGTTTGGCTATCG
*
56636654 ATGTTTGGCTATCT
1 ATGTTTGGCTATCG
56636668 ATGTTTGG
1 ATGTTTGG
56636676 TTTATAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.14, C:0.09, G:0.29, T:0.49
Consensus pattern (14 bp):
ATGTTTGGCTATCG
Found at i:56641005 original size:27 final size:27
Alignment explanation
Indices: 56640966--56641057 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
56640956 GTAAGATAGG
*
56640966 CCACTAAGGCAATCCATTCAGAGTATT
1 CCACAAAGGCAATCCATTCAGAGTATT
*
56640993 CCACAAAGACAATCCATTCAGAG-ATT
1 CCACAAAGGCAATCCATTCAGAGTATT
* ** * *
56641019 GCCACAAAGGCTATTTATACAGAGTATG
1 -CCACAAAGGCAATCCATTCAGAGTATT
56641047 CCACAAAGGCA
1 CCACAAAGGCA
56641058 TTTGTAACGT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.06
27 49 0.91
28 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (27 bp):
CCACAAAGGCAATCCATTCAGAGTATT
Found at i:56641446 original size:21 final size:21
Alignment explanation
Indices: 56641420--56641459 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
56641410 TGTCGTGTAG
56641420 GTATTTTGGTCCAGTCAAAGT
1 GTATTTTGGTCCAGTCAAAGT
56641441 GTATTTTGGTCCAGTCAAA
1 GTATTTTGGTCCAGTCAAA
56641460 ATACTGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (21 bp):
GTATTTTGGTCCAGTCAAAGT
Found at i:56643340 original size:27 final size:27
Alignment explanation
Indices: 56643299--56643396 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
56643289 GGAGGGTTAC
* *
56643299 ACGATTCATATAGAGTACGCCACATAG
1 ACGATTCATACAGAGTACGCCACAAAG
56643326 ACGATTCATACAGAGTACGCCACAAAG
1 ACGATTCATACAGAGTACGCCACAAAG
* * * **
56643353 GCGATTCATACACAGTACACCGTAAAGG
1 ACGATTCATACAGAGTACGCCACAAA-G
*
56643381 A-GATTCATTCAGAGTA
1 ACGATTCATACAGAGTA
56643397 TGTTACAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (27 bp):
ACGATTCATACAGAGTACGCCACAAAG
Found at i:56644953 original size:23 final size:23
Alignment explanation
Indices: 56644923--56644970 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
56644913 TATTGGTTGG
56644923 AAGTAATCCCACATCGGGAAGCT
1 AAGTAATCCCACATCGGGAAGCT
56644946 AAGTAATCCCACATCGGGAAGCT
1 AAGTAATCCCACATCGGGAAGCT
56644969 AA
1 AA
56644971 CATGAGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (23 bp):
AAGTAATCCCACATCGGGAAGCT
Found at i:56645384 original size:27 final size:27
Alignment explanation
Indices: 56645346--56645399 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
56645336 AATCTCATAT
*
56645346 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACCAAAATACCC
56645373 CTGTAGGGTAGAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACCAAAATACCC
56645400 TTGGTTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCAAAATACCC
Found at i:56645414 original size:27 final size:27
Alignment explanation
Indices: 56645384--56645646 Score: 206
Period size: 27 Copynumber: 9.7 Consensus size: 27
56645374 TGTAGGGTAG
* **
56645384 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
56645411 AATTACCACAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
56645438 AATTACCGAAATA-CCTTCGACTTGTAA
1 AATTACCAAAATACCCTT-GATTTGTAA
* *
56645465 AATTACTAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
56645492 AGTTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * * *
56645519 AAGTACCGAAATACCCTTAATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
56645546 AATTACAAAAATACCCTTAACTTTCAAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * * *
56645574 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** * *
56645601 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
56645628 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
56645647 TAGGATGAAA
Statistics
Matches: 187, Mismatches: 44, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.02
27 160 0.86
28 24 0.13
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:56645973 original size:27 final size:27
Alignment explanation
Indices: 56645881--56645976 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 27
56645871 GGAAGTTCTG
* * * *
56645881 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTTTGCCACATTTACTGT
* * * *
56645908 TACTGGTGGCTATGCTACAATTACTGA
1 TACTGGTGGCTTTGCCACATTTACTGT
56645935 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTTTGCCACATTTACTGT
* *
56645962 TTCTGGTAGCTTTGC
1 TACTGGTGGCTTTGC
56645977 TACGATATTG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.39
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACATTTACTGT
Found at i:56652081 original size:15 final size:16
Alignment explanation
Indices: 56652054--56652083 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56652044 ATTTTGGGGG
56652054 CAAAATGTAATTTTTC
1 CAAAATGTAATTTTTC
56652070 CAAAAT-TAATTTTT
1 CAAAATGTAATTTTT
56652084 GGGTTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (16 bp):
CAAAATGTAATTTTTC
Found at i:56657150 original size:19 final size:19
Alignment explanation
Indices: 56657105--56657151 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
56657095 TATTATGAAA
56657105 AACTAAAATAGAAATAATT
1 AACTAAAATAGAAATAATT
*
56657124 AA-TCAAAATA-ACATAAATT
1 AACT-AAAATAGAAAT-AATT
56657143 AACTAAAAT
1 AACTAAAAT
56657152 TAAAGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 4 0.17
19 19 0.79
20 1 0.04
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (19 bp):
AACTAAAATAGAAATAATT
Found at i:56674697 original size:55 final size:53
Alignment explanation
Indices: 56674580--56674764 Score: 223
Period size: 55 Copynumber: 3.4 Consensus size: 53
56674570 AACTTACCAT
*
56674580 TGCCATGTCTTGACATGGTCTTACG-TGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTA-GATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
56674633 TGCCATGTCTTGGCATGGTCTTAGATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTAGATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
56674688 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTAGATG-GTACCTTGCCTTATAGAACTCATCAA
*
56674742 TGCCATGCCTTGGA-ATGGTCTTA
1 TGCCATGTCTT-GACATGGTCTTA
56674765 CATGATATCC
Statistics
Matches: 116, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
52 3 0.03
53 35 0.30
54 29 0.25
55 47 0.41
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTAGATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:56674811 original size:47 final size:47
Alignment explanation
Indices: 56674756--56675581 Score: 1625
Period size: 47 Copynumber: 17.6 Consensus size: 47
56674746 ATGCCTTGGA
* *
56674756 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56674803 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56674850 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56674897 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56674944 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56674991 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675038 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675085 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675132 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675179 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675226 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675273 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675320 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675367 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675414 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675461 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56675508 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
*
56675555 ATGGTCTTACATGGTATCATTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
56675582 GTGCCAATGC
Statistics
Matches: 776, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 776 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
Found at i:56682451 original size:43 final size:42
Alignment explanation
Indices: 56682416--56682554 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 42
56682406 TCTTCCATGT
*
56682416 AATCAAATATTGATGCCACTATCCCAAACAGGGTCTTACACGA
1 AATCAAATA-TGATGCCAATATCCCAAACAGGGTCTTACACGA
* *
56682459 AATCAAATATGATGCCAATGTCCCAAACATGGTCTTACACGTA
1 AATCAAATATGATGCCAATATCCCAAACAGGGTCTTACACG-A
* ** * *
56682502 AATCTCAAAT-CGATGCCAACGTCCCATA-TGTGGTCTTACACGA
1 AA--TCAAATATGATGCCAATATCCCAAACAG-GGTCTTACACGA
*
56682545 AATCACATAT
1 AATCAAATAT
56682555 CGGAATCCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.06
42 29 0.36
43 15 0.19
44 26 0.32
45 6 0.07
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (42 bp):
AATCAAATATGATGCCAATATCCCAAACAGGGTCTTACACGA
Found at i:56682485 original size:42 final size:42
Alignment explanation
Indices: 56682385--56682554 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 42
56682375 AGCTCATACA
* * * *
56682385 ATGCCAACGTCCCAGAAGTGGTCTTCCATGTAATCAAATATTG
1 ATGCCAACGTCCCAAAAGTGGTCTTACACGAAATCAAATA-TG
*
56682428 ATGCC-ACTATCCCAAACAG-GGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAAA-AGTGGTCTTACACGAAATCAAATATG
* *
56682470 ATGCCAATGTCCCAAACA-TGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAACGTCCCAAA-AGTGGTCTTACACG-AAA--TCAAATATG
* * *
56682514 ATGCCAACGTCCCATATGTGGTCTTACACGAAATCACATAT
1 ATGCCAACGTCCCAAAAGTGGTCTTACACGAAATCAAATAT
56682555 CGGAATCCTA
Statistics
Matches: 105, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
41 5 0.05
42 29 0.28
43 36 0.34
44 29 0.28
45 6 0.06
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAAAAGTGGTCTTACACGAAATCAAATATG
Found at i:56682536 original size:44 final size:44
Alignment explanation
Indices: 56682437--56682548 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
56682427 GATGCCACTA
* * *
56682437 TCCCAAACAGGGTCTTACACGAAA--TCAAATATGATGCCAATG
1 TCCCAAACATGGTCTTACACGAAATCTCAAATACGATGCCAACG
56682479 TCCCAAACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACG
1 TCCCAAACATGGTCTTACACG-AAATCTCAAATACGATGCCAACG
* **
56682523 TCCCATATGTGGTCTTACACGAAATC
1 TCCCAAACATGGTCTTACACGAAATC
56682549 ACATATCGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 20 0.33
43 8 0.13
44 27 0.44
45 6 0.10
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (44 bp):
TCCCAAACATGGTCTTACACGAAATCTCAAATACGATGCCAACG
Found at i:56684443 original size:18 final size:18
Alignment explanation
Indices: 56684399--56684443 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
56684389 CATGGTTAGC
56684399 AGGGAAAGAAAGAAGAAA
1 AGGGAAAGAAAGAAGAAA
*
56684417 AGAGAAAAGAAA-AAGAAAA
1 AG-GGAAAGAAAGAAG-AAA
56684436 AGGGAAAG
1 AGGGAAAG
56684444 CTAGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGGGAAAGAAAGAAGAAA
Found at i:56700350 original size:47 final size:48
Alignment explanation
Indices: 56700228--56700356 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
56700218 TACCACGGCT
* * *
56700228 ATACGTGTAATGTGGTGCTAAGTGGATTTACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
56700276 ATACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* *
56700324 ATTCAT-TAACGTGGTGCTAAGTGGATATTCCAC
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAC
56700357 AGTTAAACAT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 25 0.35
48 46 0.65
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:56700381 original size:38 final size:38
Alignment explanation
Indices: 56700330--56700406 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
56700320 ATTGATTCAT
*
56700330 TAACGTGGTGCTAAGTGGATATTCCACAGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATGCCACAGTTAAACATG
* *
56700368 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATGCCACAGTTAAACATG
56700406 T
1 T
56700407 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATGCCACAGTTAAACATG
Found at i:56701906 original size:25 final size:25
Alignment explanation
Indices: 56701877--56701928 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
56701867 TTCAAAGTAT
56701877 ATCTTGTTGTGTTAGCAATTTTGCG
1 ATCTTGTTGTGTTAGCAATTTTGCG
56701902 ATCTTGTTGTGTTAGCAATTTTGCG
1 ATCTTGTTGTGTTAGCAATTTTGCG
56701927 AT
1 AT
56701929 GTATAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.23, T:0.48
Consensus pattern (25 bp):
ATCTTGTTGTGTTAGCAATTTTGCG
Found at i:56705460 original size:44 final size:42
Alignment explanation
Indices: 56705406--56705561 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 42
56705396 TTTCGATATG
*
56705406 TGATTTCGTGTAAGACCACGTCTAGGACATTGGCATC-AATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAATT
* * * *
56705447 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGACATCGTATT
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGAATT
* ** *
56705492 TGATTTTGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-ATT
* * *
56705535 TGATTACATGTAAGACCACGTCAGGGA
1 TGATTTCGTGTAAGACCACGTCTGGGA
56705562 TGTCGGCATT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 34 0.37
44 27 0.29
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAATT
Found at i:56705514 original size:42 final size:43
Alignment explanation
Indices: 56705398--56705539 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 43
56705388 ACATAGGATT
* * * * * *
56705398 TCGATATGTGATTTCGTGTAAGACCACGTCTAGGACATTGGCA
1 TCGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGACA
*
56705441 TC-A-ATTTGAGATTTACGTGTAAGACCATGTCTGGGACA-TCGACA
1 TCGATATTT--GATTT-TGTGTAAGACCATGTCTGGGACAGT-GACA
* *
56705485 TCG-TATTTGATTTTGTGTAAGACCTTGTCTGGGACAGTGGCA
1 TCGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGACA
56705527 TCGATATTTGATT
1 TCGATATTTGATT
56705540 ACATGTAAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
41 3 0.04
42 28 0.33
43 23 0.27
44 26 0.31
45 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
TCGATATTTGATTTTGTGTAAGACCATGTCTGGGACAGTGACA
Found at i:56706521 original size:27 final size:27
Alignment explanation
Indices: 56706476--56706682 Score: 150
Period size: 27 Copynumber: 7.6 Consensus size: 27
56706466 TTAGTTTACC
* **
56706476 AAATTACTAAAATGTCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTGTA
* * *
56706503 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTGTA
* **** *
56706530 GAATTACCGTTTTTACACTCAATTT-TCA
1 AAATTACC-AAAATACCCTCAATTTGT-A
* * *** **
56706558 AAATTACTAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCAATTTGTA
*
56706585 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTGTA
* *
56706612 AAATTACCAAAATACCACT-AGTTTGTG
1 AAATTACCAAAATACC-CTCAATTTGTA
*
56706639 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTGTA
56706666 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
56706683 CTGATTCACA
Statistics
Matches: 137, Mismatches: 36, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
26 2 0.01
27 117 0.85
28 18 0.13
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTGTA
Found at i:56706624 original size:54 final size:55
Alignment explanation
Indices: 56706557--56706764 Score: 197
Period size: 54 Copynumber: 3.8 Consensus size: 55
56706547 CTCAATTTTC
* *
56706557 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* *** * *
56706611 AAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* * * * * * * *
56706665 AAAATTACCAAAATACCCCTGATTCACAAAATTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* * **
56706720 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 -AAAATTACCA-AAATACCACTGGTTTACAAAATTACCAAAATACC
56706765 ATTGGTTTGT
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
53 4 0.03
54 74 0.61
55 9 0.07
56 35 0.29
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (55 bp):
AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
Found at i:56706760 original size:27 final size:27
Alignment explanation
Indices: 56706556--56706772 Score: 132
Period size: 27 Copynumber: 8.0 Consensus size: 27
56706546 ACTCAATTTT
*
56706556 CAAAATTACTAAAATACCATTGGTTTA
1 CAAAATTACCAAAATACCATTGGTTTA
** * *
56706583 CAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCATTGGTTTA
* * * *
56706610 TAAAATTACCAAAATACCACTAGTTTG
1 CAAAATTACCAAAATACCATTGGTTTA
** * * *** *
56706637 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCATTGGTTTA
* ** * *
56706664 TAAAATTACCAAAATACCCCTGATTCA
1 CAAAATTACCAAAATACCATTGGTTTA
* * *
56706691 CAAAATTACAAAAATACCCTTGACTTT-
1 CAAAATTACCAAAATACCATTG-GTTTA
*
56706718 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCATTGGTTTA
**
56706747 CAAAATTACTGAAATACCATTGGTTT
1 CAAAATTACCAAAATACCATTGGTTT
56706773 GTAGATTTAC
Statistics
Matches: 155, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
27 130 0.84
28 7 0.05
29 18 0.12
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (27 bp):
CAAAATTACCAAAATACCATTGGTTTA
Found at i:56706890 original size:27 final size:27
Alignment explanation
Indices: 56706826--56706890 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
56706816 ACCCCTAATA
*
56706826 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
56706853 GGTAAAGTGACCGTAGTA-CCCCTGTAT
1 GGTAAAATGACCGTA-AAGCCCCTGTAG
56706880 GGTAAAATGAC
1 GGTAAAATGAC
56706891 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:56707738 original size:25 final size:25
Alignment explanation
Indices: 56707698--56707767 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
56707688 AAGAAGTGCT
* *
56707698 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
56707723 AAAAGGGCTTTACCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56707748 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56707768 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:56707780 original size:24 final size:24
Alignment explanation
Indices: 56707697--56707792 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
56707687 GAAGAAGTGC
*
56707697 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
56707722 GAAAAGGGCTTTACCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
56707746 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
56707770 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
56707793 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:56725263 original size:36 final size:37
Alignment explanation
Indices: 56725217--56725296 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 37
56725207 AGGTAATATA
*
56725217 AACATAATATACTACAATTCCATTTAATCACAAGGCT
1 AACACAATATACTACAATTCCATTTAATCACAAGGCT
56725254 AACACATATAATATACTACAATTCCATTTAATCACAAGGCT
1 AACAC----AATATACTACAATTCCATTTAATCACAAGGCT
56725295 AA
1 AA
56725297 TATATATGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
37 4 0.11
41 34 0.89
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (37 bp):
AACACAATATACTACAATTCCATTTAATCACAAGGCT
Found at i:56725851 original size:28 final size:28
Alignment explanation
Indices: 56725819--56725873 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
56725809 ATACAATTAC
56725819 ATTAATGCTTATTAACATATGAACTTAT
1 ATTAATGCTTATTAACATATGAACTTAT
56725847 ATTAATGCTTATTAACATATGAACTTA
1 ATTAATGCTTATTAACATATGAACTTA
56725874 CTTTGGTCAC
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:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (28 bp):
ATTAATGCTTATTAACATATGAACTTAT
Found at i:56727229 original size:24 final size:24
Alignment explanation
Indices: 56727193--56727244 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
56727183 CACAAACACA
*
56727193 GCTCTTCATGAGCATCCTGATATAG
1 GCTCTTCATGAGCATCCTGACAT-G
*
56727218 GCTCTT-ATGAGCTTCCTGACATG
1 GCTCTTCATGAGCATCCTGACATG
56727241 GCTC
1 GCTC
56727245 GCTGAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (24 bp):
GCTCTTCATGAGCATCCTGACATG
Found at i:56727314 original size:23 final size:23
Alignment explanation
Indices: 56727287--56727350 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
56727277 CTGTTACATA
*
56727287 GCTCTTTGTGGGCTTCCTGATAG
1 GCTCTTTGTGAGCTTCCTGATAG
56727310 GCTCTTTGTGAGCTTCCTGATAG
1 GCTCTTTGTGAGCTTCCTGATAG
*
56727333 GCTCTTTGTGAGTTTCCT
1 GCTCTTTGTGAGCTTCCT
56727351 AATTAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.09, C:0.22, G:0.27, T:0.42
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCTGATAG
Found at i:56728265 original size:16 final size:17
Alignment explanation
Indices: 56728243--56728282 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
56728233 GTTTGTAACG
56728243 TCCCAAAAATCCCGAAA
1 TCCCAAAAATCCCGAAA
*
56728260 -CCCAAAAATCCTGAAA
1 TCCCAAAAATCCCGAAA
56728276 TCCCAAA
1 TCCCAAA
56728283 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.47, C:0.35, G:0.05, T:0.12
Consensus pattern (17 bp):
TCCCAAAAATCCCGAAA
Found at i:56729647 original size:29 final size:29
Alignment explanation
Indices: 56729604--56729701 Score: 110
Period size: 28 Copynumber: 3.4 Consensus size: 29
56729594 ATTTGACTAC
* *
56729604 GCCTAACGGGTCATATAAATGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* * *
56729633 GCCTAATGGGCCATATACAGGTCATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* *
56729662 G-CTAATGGGCCATATGAATATGA-TTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
*
56729689 GCTTAATGGGCCA
1 GCCTAATGGGCCA
56729702 GATACAGGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
27 5 0.09
28 27 0.47
29 25 0.44
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
GCCTAATGGGCCATATAAATGTGATTTGG
Found at i:56729675 original size:28 final size:28
Alignment explanation
Indices: 56729627--56729710 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
56729617 TATAAATGTG
56729627 ATTTGGGCCTAATGGGCCATATACAGGTC
1 ATTTGGG-CTAATGGGCCATATACAGGTC
** *
56729656 ATTTGGGCTAATGGGCCATATGA-ATATG
1 ATTTGGGCTAATGGGCCATAT-ACAGGTC
*
56729684 A-TTGGGCTTAATGGGCCAGATACAGGT
1 ATTTGGGC-TAATGGGCCATATACAGGT
56729711 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.15
28 31 0.67
29 8 0.17
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
ATTTGGGCTAATGGGCCATATACAGGTC
Found at i:56733810 original size:43 final size:43
Alignment explanation
Indices: 56733749--56733907 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
56733739 GAAAGCCATA
* * ** *
56733749 TCCCAGATATGGTCTTACATGTCGTCACATATCAATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAATG
* * * *
56733792 TCCCAGACATGGTCTTACACGAAATTGA-ATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAA-TCACATATCAATGCCAATG
* *
56733835 TCCCAGACATGGTCGTACACGTAATCACA-ATACAATGTCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATAT-CAATGCCAATG
* * *
56733878 TCCTAAACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACACGTAATCACAT
56733908 CTCGGTAACC
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 3 0.03
43 88 0.95
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAATG
Found at i:56737168 original size:22 final size:22
Alignment explanation
Indices: 56737138--56737182 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
56737128 ATGACATGAG
*
56737138 TAAGTTTATATCTATTGATGCA
1 TAAGGTTATATCTATTGATGCA
56737160 TAAGGTTATATCTATTGATGCA
1 TAAGGTTATATCTATTGATGCA
56737182 T
1 T
56737183 GAGATAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (22 bp):
TAAGGTTATATCTATTGATGCA
Found at i:56737200 original size:22 final size:22
Alignment explanation
Indices: 56737145--56737200 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
56737135 GAGTAAGTTT
* *
56737145 ATATCTATTGATGCATAAGGTT
1 ATATCTATTGATGCATAAGATA
*
56737167 ATATCTATTGATGCATGAGATA
1 ATATCTATTGATGCATAAGATA
56737189 ATA-CTATATGAT
1 ATATCTAT-TGAT
56737201 TGATGTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATCTATTGATGCATAAGATA
Found at i:56738581 original size:217 final size:217
Alignment explanation
Indices: 56738206--56738610 Score: 702
Period size: 217 Copynumber: 1.9 Consensus size: 217
56738196 GTGAGGCATC
*
56738206 AAAAGCAACCTTCTTTAAATTGATGGATGAATGGTTTAGTGAATATATGAGAACAAATCCCTCTG
1 AAAAGCAACCTTCTTTAAATTGATGGATGAATGGTTTAGTGAATATATGAGAACAAATCCCGCTG
56738271 TTCAACAACCTCCCCCACATGCTTCACAACATGATGAAATGCCACAGGATGCTAGATCTATTAGA
66 TTCAACAACCTCCCCCACATGCTTCACAACATGATGAAATGCCACAGGATGCTAGATCTATTAGA
56738336 ATTGGTAAGGCTCCAGTAGATAAAATCAGAAAACATAGGGCTGAAGAATTTAGAGCTATGACCAA
131 ATTGGTAAGGCTCCAGTAGATAAAATCAGAAAACATAGGGCTGAAGAATTTAGAGCTATGACCAA
56738401 TAATGATCCAGTAGATAAAGTT
196 TAATGATCCAGTAGATAAAGTT
* * *
56738423 AAAAGCAGCCTTCTTTGAATTGATGGATGAATGGTTTAGTGAATATATGAGAACAAATCTCGCTG
1 AAAAGCAACCTTCTTTAAATTGATGGATGAATGGTTTAGTGAATATATGAGAACAAATCCCGCTG
* * * * *
56738488 TTCAACGACCTCCCCCACCTGCTTTACAACATGATGAAGTGCCACAGGATGCTAGATCTGTTAGA
66 TTCAACAACCTCCCCCACATGCTTCACAACATGATGAAATGCCACAGGATGCTAGATCTATTAGA
* * *
56738553 ATTGGTAAGGCTCTAGTAGATAAAATCAGAAAACATAGGGTTGAAGAATTTAGGGCTA
131 ATTGGTAAGGCTCCAGTAGATAAAATCAGAAAACATAGGGCTGAAGAATTTAGAGCTA
56738611 CGGCCGATGA
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 176 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (217 bp):
AAAAGCAACCTTCTTTAAATTGATGGATGAATGGTTTAGTGAATATATGAGAACAAATCCCGCTG
TTCAACAACCTCCCCCACATGCTTCACAACATGATGAAATGCCACAGGATGCTAGATCTATTAGA
ATTGGTAAGGCTCCAGTAGATAAAATCAGAAAACATAGGGCTGAAGAATTTAGAGCTATGACCAA
TAATGATCCAGTAGATAAAGTT
Found at i:56744188 original size:9 final size:9
Alignment explanation
Indices: 56744174--56744198 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
56744164 AGGACCAAAT
56744174 TGTGAAAAA
1 TGTGAAAAA
56744183 TGTGAAAAA
1 TGTGAAAAA
56744192 TGTGAAA
1 TGTGAAA
56744199 TTTATGGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGTGAAAAA
Found at i:56744603 original size:40 final size:40
Alignment explanation
Indices: 56744491--56744621 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 40
56744481 TTATTTGTGG
** * *
56744491 CACTTAGTGTGCGATAGGACATAGCTTCGACTATATATGG
1 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGA
** * *
56744531 CACTTAGTGTATGATTCCACATAGCTTTGGCTATATATGA
1 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGA
* * * * *
56744571 CACTTAGTGTGCGATTTGAGATGGCTTCGGCTATGTACGA
1 CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGA
*
56744611 AACTTAGTGTG
1 CACTTAGTGTG
56744622 TGAGATATTG
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGA
Found at i:56747484 original size:30 final size:30
Alignment explanation
Indices: 56747450--56747510 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56747440 TCCTTAACTC
56747450 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56747480 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56747510 A
1 A
56747511 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56751174 original size:43 final size:43
Alignment explanation
Indices: 56751124--56751208 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
56751114 TTGTGATTCT
** *
56751124 GATATGTGTTTACAAGTAAGACC-CTGTCTGGGACAGTGGCATC
1 GATATGTGGCTACAAGTAAGACCAC-GTCTGGAACAGTGGCATC
* *
56751167 GATATGTGGCTACATGTAAGACCACGTCTGGAACATTGGCAT
1 GATATGTGGCTACAAGTAAGACCACGTCTGGAACAGTGGCAT
56751209 TGTAAGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
GATATGTGGCTACAAGTAAGACCACGTCTGGAACAGTGGCATC
Found at i:56764202 original size:49 final size:49
Alignment explanation
Indices: 56764146--56764319 Score: 258
Period size: 49 Copynumber: 3.5 Consensus size: 49
56764136 CTAGTACGCA
*
56764146 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * ** * *
56764195 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
56764245 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
56764294 TAGTGGCCTACACTTAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
56764320 CGTGACCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 68 0.62
50 42 0.38
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:56764317 original size:99 final size:99
Alignment explanation
Indices: 56764146--56764327 Score: 337
Period size: 99 Copynumber: 1.8 Consensus size: 99
56764136 CTAGTACGCA
* *
56764146 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
56764211 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
*
56764245 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTGGCCTACACTTA
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
56764310 GTACTACACACGTGACCT
66 GTACTACACACGTGACCT
56764328 CATAATAGAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:56767059 original size:15 final size:15
Alignment explanation
Indices: 56767039--56767075 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
56767029 CAACAAGTTA
56767039 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
56767054 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
*
56767069 CATGATA
1 CAAGATA
56767076 CGAGAATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
CAAGATAAAGAAATC
Found at i:56770279 original size:50 final size:49
Alignment explanation
Indices: 56770169--56770400 Score: 311
Period size: 49 Copynumber: 4.7 Consensus size: 49
56770159 CTAGTACGCA
* * *
56770169 TAGTAGCCTGCACGTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** *
56770218 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * *
56770268 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACG
* * * *
56770319 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
56770368 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
56770401 TTACAATAGA
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 71 0.45
50 49 0.31
51 38 0.24
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:56772472 original size:16 final size:16
Alignment explanation
Indices: 56772451--56772489 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
56772441 TTTTAAAGTT
*
56772451 TAATTAAGTTATATGA
1 TAATTAAGTTAAATGA
*
56772467 TAATTAAGTTAAATGT
1 TAATTAAGTTAAATGA
56772483 TAATTAA
1 TAATTAA
56772490 ACAAAAGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (16 bp):
TAATTAAGTTAAATGA
Found at i:56773298 original size:40 final size:40
Alignment explanation
Indices: 56773254--56773411 Score: 235
Period size: 40 Copynumber: 4.0 Consensus size: 40
56773244 ATTGTATGAC
*
56773254 TGCACATATGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
*
56773294 TGCACATACATGCCCTTGTTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
* * *
56773334 TGCAGATGCGTGCCCTTGTTTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
* * * *
56773374 TGCACATATGTGCCCCTGTTTTTACTTTGGTACCCCTG
1 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTG
56773412 CCTATTTGTA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (40 bp):
TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAT
Found at i:56773432 original size:64 final size:64
Alignment explanation
Indices: 56773352--56773475 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
56773342 CGTGCCCTTG
* *
56773352 TTTGTACTTCGATACCCCTGATTGCACATATGTGCCCCTGTTTTTACTTTGGTACCCCTGCCTA
1 TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGCCTA
* *
56773416 TTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTATTTTGGTACCCCTG
1 TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
56773476 ATTGTACTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.39
Consensus pattern (64 bp):
TTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGCCTA
Found at i:56773471 original size:40 final size:40
Alignment explanation
Indices: 56773416--56773509 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
56773406 CCCCTGCCTA
*
56773416 TTTGTACTTCGGTACCCCTGATTGCACAT-ACGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGATTGCAC-TCACATGCCCCTG
* * *
56773456 TTTGTATTTTGGTACCCCTGATTGTACTCACATGCCCCTG
1 TTTGTACTTCGGTACCCCTGATTGCACTCACATGCCCCTG
* *
56773496 TTTATACTCCGGTA
1 TTTGTACTTCGGTA
56773510 ACTTTGAATC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.37
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGATTGCACTCACATGCCCCTG
Found at i:56773492 original size:104 final size:104
Alignment explanation
Indices: 56773312--56773503 Score: 278
Period size: 104 Copynumber: 1.8 Consensus size: 104
56773302 CATGCCCTTG
* * *
56773312 TTTGTACTTCGGTACCCCTGATTGCAGATGCGTGCCCTTGTTTGTACTTCGATACCCCTGATTGC
1 TTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGC
** *
56773377 ACATATGTGCCCCTGTTTTTACTTTGGTACCCCTGCCTA
66 ACATACATGCCCCTGTTTATACTTTGGTACCCCTGCCTA
* * * *
56773416 TTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTATTTTGGTACCCCTGATTGT
1 TTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGC
56773481 AC-TCACATGCCCCTGTTTATACT
66 ACAT-ACATGCCCCTGTTTATACT
56773504 CCGGTAACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 1 0.01
104 76 0.99
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (104 bp):
TTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGC
ACATACATGCCCCTGTTTATACTTTGGTACCCCTGCCTA
Found at i:56783916 original size:17 final size:18
Alignment explanation
Indices: 56783884--56783917 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56783874 CACTCCTAAA
56783884 ATGATTTCGATCTTTCTC
1 ATGATTTCGATCTTTCTC
*
56783902 ATGATTTTG-TCTTTCT
1 ATGATTTCGATCTTTCT
56783918 GTATGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.56
Consensus pattern (18 bp):
ATGATTTCGATCTTTCTC
Found at i:56785924 original size:27 final size:26
Alignment explanation
Indices: 56785877--56785927 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
56785867 CGAGGCTGCC
*
56785877 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
56785903 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
56785928 TTGCAACGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:56790799 original size:16 final size:16
Alignment explanation
Indices: 56790774--56790809 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
56790764 GAGAAACCAT
*
56790774 TTGGATTGATTAAGGG
1 TTGGACTGATTAAGGG
56790790 TTGGACTGATTAAGGG
1 TTGGACTGATTAAGGG
56790806 TTGG
1 TTGG
56790810 TAGTATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.39, T:0.36
Consensus pattern (16 bp):
TTGGACTGATTAAGGG
Found at i:56797508 original size:40 final size:38
Alignment explanation
Indices: 56797415--56797508 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 38
56797405 TAGTTAAAGT
* *
56797415 CTTTAATTATGTCATAATCTGAACATCATTAATATGAG
1 CTTTAATTATGTCATAATATGAACATCATTAATAAGAG
*
56797453 CTTTAATTATGTCATAATATGAACAT-ATTTAATAAGGG
1 CTTTAATTATGTCATAATATGAACATCA-TTAATAAGAG
*
56797491 TTTTTTAATTATGTCATA
1 --CTTTAATTATGTCATA
56797509 GTTTAGGACA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 1 0.02
38 33 0.67
40 15 0.31
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.44
Consensus pattern (38 bp):
CTTTAATTATGTCATAATATGAACATCATTAATAAGAG
Found at i:56797550 original size:39 final size:38
Alignment explanation
Indices: 56797493--56797575 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
56797483 AATAAGGGTT
* *
56797493 TTTTAATTATGTCATAGTTTAGGACATCTTAAATATATG
1 TTTTAAATATGTCATAGTTTA-GACATCTTAAATACATG
* * *
56797532 TTTTAAATATGTCCTAGTTTAGACGTCTTTAATACATG
1 TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
56797570 TCTTTA
1 T-TTTA
56797576 GTTTAGACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 15 0.39
39 23 0.61
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (38 bp):
TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
Found at i:56799869 original size:55 final size:54
Alignment explanation
Indices: 56799740--56799936 Score: 263
Period size: 55 Copynumber: 3.6 Consensus size: 54
56799730 TTGGTAAGAT
* * *
56799740 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
56799794 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
56799849 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
56799902 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
56799937 ATGGAAAGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 42 0.33
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:56799947 original size:108 final size:109
Alignment explanation
Indices: 56799748--56799947 Score: 314
Period size: 108 Copynumber: 1.8 Consensus size: 109
56799738 ATAAGGATAT
* *
56799748 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* *
56799813 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATGGATAAGTTACTATAAGGCAAAGGTCC
* * *
56799857 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
56799921 ATGTCAAGACATGGCAATGGA-AAGTTA
66 ATGTCAAGACATGGC-ATGGATAAGTTA
56799948 AAAAAGGAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 43 0.52
109 40 0.48
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCATGGATAAGTTACTATAAGGCAAAGGTCC
Found at i:56801327 original size:39 final size:35
Alignment explanation
Indices: 56801284--56801380 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 35
56801274 CAAAAAATAG
*
56801284 AAATAAAAATATTTATAAAAATATATAAAATTAATATAT
1 AAATAAAAA-ATATAT-AAAATATATAAAA-T-ATATAT
* *
56801323 AAATATAAAAATATATAAAATATTTAGAATATATAT
1 AAATA-AAAAATATATAAAATATATAAAATATATAT
* * *
56801359 -AATAAAATAGATATAATATATA
1 AAATAAAAAATATATAAAATATA
56801381 AATAAATTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
34 14 0.28
35 4 0.08
36 6 0.12
37 1 0.02
38 11 0.22
39 10 0.20
40 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (35 bp):
AAATAAAAAATATATAAAATATATAAAATATATAT
Found at i:56801344 original size:9 final size:9
Alignment explanation
Indices: 56801297--56801382 Score: 67
Period size: 9 Copynumber: 9.9 Consensus size: 9
56801287 TAAAAATATT
56801297 TATA-AAAA
1 TATATAAAA
56801305 TATATAAAA
1 TATATAAAA
56801314 TTAATATATAAA
1 -T-ATATA-AAA
56801326 TATA-AAAA
1 TATATAAAA
56801334 TATATAAAA
1 TATATAAAA
* *
56801343 TATTTAGAA
1 TATATAAAA
56801352 TATAT---A
1 TATATAAAA
56801358 TA-ATAAAA
1 TATATAAAA
* *
56801366 TAGATATAA
1 TATATAAAA
56801375 TATATAAA
1 TATATAAA
56801383 TAAATTGAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
8 14 0.22
9 31 0.49
10 4 0.06
11 6 0.10
12 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
TATATAAAA
Found at i:56801363 original size:23 final size:23
Alignment explanation
Indices: 56801333--56801386 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
56801323 AAATATAAAA
**
56801333 ATAT-ATAAAATATTTAGAATAT
1 ATATAATAAAATAGATAGAATAT
*
56801355 ATATAATAAAATAGATATAATAT
1 ATATAATAAAATAGATAGAATAT
56801378 ATA-AATAAA
1 ATATAATAAA
56801387 TTGAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAATAAAATAGATAGAATAT
Found at i:56801394 original size:22 final size:22
Alignment explanation
Indices: 56801350--56801405 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
56801340 AAATATTTAG
56801350 AATATATATAATAAAATAGATAT
1 AATATATA-AATAAAATAGATAT
*
56801373 AATATATAAAT-AAATTGAATAT
1 AATATATAAATAAAATAG-ATAT
56801395 AATAT-TAAATA
1 AATATATAAATA
56801406 TATAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AATATATAAATAAAATAGATAT
Found at i:56801409 original size:36 final size:37
Alignment explanation
Indices: 56801315--56801410 Score: 88
Period size: 40 Copynumber: 2.5 Consensus size: 37
56801305 TATATAAAAT
* *
56801315 TAATATATAAATATAAAAATATATAAAATATTTAGAATA
1 TAATAT-TAAATAT-ATAATATATAAAATAATTAGAATA
*
56801354 TATATAATAAAATAGATATAATATAT-AAATAAATT-GAATA
1 TA-AT-ATTAAAT--ATATAATATATAAAAT-AATTAGAATA
56801394 TAATATTAAATATATAA
1 TAATATTAAATATATAA
56801411 ATAAATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
36 6 0.12
38 6 0.12
39 4 0.08
40 17 0.35
41 13 0.27
42 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (37 bp):
TAATATTAAATATATAATATATAAAATAATTAGAATA
Found at i:56804514 original size:40 final size:40
Alignment explanation
Indices: 56804459--56804559 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
56804449 TATTCGAATG
56804459 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
56804499 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
56804539 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
56804560 ATACTTGGGT
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
39 14 0.24
40 43 0.73
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:56808334 original size:8 final size:8
Alignment explanation
Indices: 56808320--56808368 Score: 62
Period size: 8 Copynumber: 5.8 Consensus size: 8
56808310 TCTATTTCAA
56808320 AAAAAAAGG
1 AAAAAAA-G
*
56808329 AAAAAAGAA
1 AAAAAA-AG
56808338 AAGAAAAAG
1 AA-AAAAAG
56808347 AAAAAAAG
1 AAAAAAAG
56808355 AAAAAAAG
1 AAAAAAAG
56808363 AAAAAA
1 AAAAAA
56808369 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 20 0.56
9 11 0.31
10 5 0.14
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:56808346 original size:19 final size:18
Alignment explanation
Indices: 56808318--56808361 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
56808308 CTTCTATTTC
*
56808318 AAAAAAAAAGGAAAAAAG
1 AAAAAAAAAGAAAAAAAG
56808336 AAAAGAAAAAGAAAAAAAG
1 AAAA-AAAAAGAAAAAAAG
56808355 AAAAAAA
1 AAAAAAA
56808362 GAAAAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAG
Found at i:56809398 original size:44 final size:43
Alignment explanation
Indices: 56809339--56809681 Score: 306
Period size: 44 Copynumber: 7.8 Consensus size: 43
56809329 GATCCAAGAT
* * *
56809339 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
*
56809383 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* * *
56809427 GATTTGACATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--AT-ACA
* * * *
56809473 GATTTGGCTTTCACGTGT-TT-ACATTGA-AGCAAATCCG-AGAT---
1 GATTTGGC-ATCTC-TGTATTGGCA--GAGAGCAGAT-CGAAGATACA
* ** * *
56809514 GATTTGGCGTCTCTGTATTTTCAGAGAGTAGGTCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
* * *
56809558 GATTTGGCATCTCTGTATTAGCAAAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* *
56809602 GATTTGGCATCTCTATATTGGCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
*
56809646 GATTTGGCGTCTCTGTATTGGCA-AGGAGCAGATCGA
1 GATTTGGCATCTCTGTATTGGCAGA-GAGCAGATCGA
56809682 GGACATAGCT
Statistics
Matches: 245, Mismatches: 36, Indels: 36
0.77 0.11 0.11
Matches are distributed among these distances:
39 7 0.03
40 13 0.05
41 10 0.04
43 2 0.01
44 177 0.72
45 3 0.01
46 14 0.06
47 13 0.05
48 6 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACA
Found at i:56809615 original size:175 final size:175
Alignment explanation
Indices: 56809315--56809640 Score: 501
Period size: 175 Copynumber: 1.9 Consensus size: 175
56809305 CCTTTAAGTA
* *
56809315 TTTACACTGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATG
1 TTTACACTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATG
* * * *
56809380 ACAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGACATCTCTGTAT
66 ACAGATTTGGCATCTCTGTATTAGCAAAGAGCAGATCGAAGATAACAGATTTGACATCTCTATAT
*
56809445 TGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTG
131 TGGCAGAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTG
* * * * *
56809490 TTTACATTGAAGCAAATCCGAGATGATTTGGCGTCTCTGTATTTTCAGAGAGTAGGTCGAAGAT-
1 TTTACACTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATG
* *
56809554 AGCAGATTTGGCATCTCTGTATTAGCAAAGAGCAGATCGAAGATAATAGATTTGGCATCTCTATA
66 A-CAGATTTGGCATCTCTGTATTAGCAAAGAGCAGATCGAAGATAACAGATTTGACATCTCTATA
*
56809619 TTGGCAGAGAGTAGATCGAAGA
130 TTGGCAGAGAGCAGATCGAAGA
56809641 TAGCAGATTT
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
174 1 0.01
175 134 0.99
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (175 bp):
TTTACACTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATG
ACAGATTTGGCATCTCTGTATTAGCAAAGAGCAGATCGAAGATAACAGATTTGACATCTCTATAT
TGGCAGAGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTG
Found at i:56809721 original size:219 final size:218
Alignment explanation
Indices: 56809339--56809750 Score: 655
Period size: 219 Copynumber: 1.9 Consensus size: 218
56809329 GATCCAAGAT
* ** * *
56809339 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGTCAAAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGG
*
56809404 CAGAGAGTAGATCGAAGATAACAGATTTGACATCTCTGTATTGGCAGGGAGCAGATCGAAGACAT
66 CAGAGAGTAGATCGAAGATAACAGATTTGACATCTCTGTATTGGCAAGGAGCAGATCGAAGACAT
*
56809469 AACTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCCGAGATGATTTGGCGTCTCTGTATTT
131 AACTGATTTGGCTTTCACGTGTTTACATTGAAGCAAAT-CAAGATGATTTGGCGTCTCTGTATTT
56809534 TCAGAGAGTAGGTCGAAGATAGCA
195 TCAGAGAGTAGGTCGAAGATAGCA
*
56809558 GATTTGGCATCTCTGTATTAG-CAAAGAGCAGATCGAAGATAATAGATTTGGCATCTCTATATTG
1 GATTTGGCATCTCTGTATT-GTCAAAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTG
* * * *
56809622 GCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAAGGAGCAGATCGAGGACA
65 GCAGAGAGTAGATCGAAGATAACAGATTTGACATCTCTGTATTGGCAAGGAGCAGATCGAAGACA
* * * *
56809687 TAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATTAAGATGATTTGGTGTCTCTGTATT
130 TAACTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCAAGATGATTTGGCGTCTCTGTATT
56809751 GGCAGGGAGC
Statistics
Matches: 176, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
218 22 0.12
219 153 0.87
220 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (218 bp):
GATTTGGCATCTCTGTATTGTCAAAGAGCAGATCGAAGATAACAGATTTGGCATCTCTATATTGG
CAGAGAGTAGATCGAAGATAACAGATTTGACATCTCTGTATTGGCAAGGAGCAGATCGAAGACAT
AACTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCAAGATGATTTGGCGTCTCTGTATTTT
CAGAGAGTAGGTCGAAGATAGCA
Found at i:56809860 original size:87 final size:87
Alignment explanation
Indices: 56809646--56810082 Score: 642
Period size: 87 Copynumber: 5.0 Consensus size: 87
56809636 GAAGATAGCA
* *
56809646 GATTTGGCGTCTCTGTATTGGCAAGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
56809711 TACGTTGAAGCAAAT-TAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
56809732 GATTTGGTGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACTTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
56809797 TACATTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * *
56809819 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAGGACATAGCTGATTTGGTTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
56809884 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * *
56809906 GATTTGGCGTCTCTATATTGGTAGGGAGCAGATCGAAAACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
56809971 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * * * * * *
56809993 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCGTCTCTGTATT-GGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
* * * *
56810058 TTACATCGAAGCAGATCCAAGAT
65 TTACGTTGAAGCAAATCTAAGAT
56810081 GA
1 GA
56810083 CAGATTTGGC
Statistics
Matches: 315, Mismatches: 34, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
86 75 0.24
87 183 0.58
88 57 0.18
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (87 bp):
GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:56809871 original size:219 final size:217
Alignment explanation
Indices: 56809364--56809854 Score: 632
Period size: 219 Copynumber: 2.2 Consensus size: 217
56809354 TATTGTCAGG
* * *
56809364 GAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGA
1 GAGCAAATCGAAGA--ATAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCAGA
* *
56809429 TTTGACATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTA
64 TTTGGCATCTCTGTATTGGCAAGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTA
* ** * *
56809494 CATTGAAGCAAATCCGAGATGATTTGGCGTCTCTGTATTTTCAGAGAGTAGGTCGAAGATAGCAG
129 CATTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
*
56809559 ATTTGGCATCTCTGTATTAGCAAA
194 ATTTGGCATCACTGTATTAGCAAA
* *
56809583 GAGCAGATCGAAGATAATAGATTTGGCATCTCTATATTGGCAGAGAGTAGATCGAAGATAGCAGA
1 GAGCAAATCGAAG--AATAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCAGA
* * *
56809648 TTTGGCGTCTCTGTATTGGCAAGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTA
64 TTTGGCATCTCTGTATTGGCAAGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTA
* * * *
56809713 CGTTGAAGCAAAT-TAAGATGATTTGGTGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGC
129 CATTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAG--ATAGC
* * **
56809777 TGATTTGGCTTTCACTTGT-TTA-CATT
192 AGATTTGGC-ATCAC-TGTATTAGCAAA
* *
56809803 GAAGCAAATCTAAG-AT-GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA
1 G-AGCAAATCGAAGAATAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGA
56809855 GGACATAGCT
Statistics
Matches: 239, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
217 34 0.14
218 38 0.16
219 131 0.55
220 16 0.07
221 17 0.07
222 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (217 bp):
GAGCAAATCGAAGAATAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCAGATT
TGGCATCTCTGTATTGGCAAGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACA
TTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGAT
TTGGCATCACTGTATTAGCAAA
Found at i:56810260 original size:78 final size:78
Alignment explanation
Indices: 56810130--56810413 Score: 471
Period size: 78 Copynumber: 3.6 Consensus size: 78
56810120 AGAGATAACA
*
56810130 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAAATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
*
56810195 GCAGATCCAATAT
66 GCAGATCCAAGAT
56810208 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
* *
56810273 GCAGATTCACGAT
66 GCAGATCCAAGAT
* * *
56810286 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGA
56810350 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
56810364 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGAT
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGAT
56810414 NNNNNNNNNN
Statistics
Matches: 195, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:56822469 original size:40 final size:40
Alignment explanation
Indices: 56822384--56823451 Score: 1566
Period size: 40 Copynumber: 26.7 Consensus size: 40
56822374 GCATGATTGT
* * * *
56822384 TCTTCGGGACCTAG-CCTGGATATAACACCAGCA-GAATGC
1 TCTTCGGGACTTAGTCC-GGATACATCACTAGCACGAATGC
** *
56822423 TCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTC-CGGATACATCACTAGCACGAATGC
* *
56822463 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
56822503 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * **
56822543 TCTTCGGAACTTAGTCCGGATACATCACAAGCATTAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* *
56822583 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
** * * *
56822623 TCTTTAGAACCTAGTCCGGATACATCACTAGCATGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* *
56822663 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56822703 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56822743 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56822783 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56822823 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56822863 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56822903 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56822943 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56822983 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56823023 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56823063 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56823103 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56823143 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56823183 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56823223 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56823263 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56823303 CCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56823343 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
*
56823383 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
* * *
56823423 CCTTCGGGACTTAGCCCGGATATATCACT
1 TCTTCGGGACTTAGTCCGGATACATCACT
56823452 CTCAATTCTC
Statistics
Matches: 919, Mismatches: 107, Indels: 5
0.89 0.10 0.00
Matches are distributed among these distances:
39 26 0.03
40 892 0.97
41 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
Found at i:56822523 original size:80 final size:80
Alignment explanation
Indices: 56822413--56823451 Score: 1864
Period size: 80 Copynumber: 13.0 Consensus size: 80
56822403 ATATAACACC
* ** *
56822413 AGCA-GAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56822477 TCCGGATACATCACT
66 TCCGGATACATCACT
* * * *
56822492 AGCATGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
*
56822557 TCCGGATACATCACA
66 TCCGGATACATCACT
** * ** *
56822572 AGCATTAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTTAGAACCTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56822637 TCCGGATACATCACT
66 TCCGGATACATCACT
* *
56822652 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56822717 TCCGGATACATCACT
66 TCCGGATACATCACT
56822732 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56822797 TCCGGATACATCACT
66 TCCGGATACATCACT
56822812 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56822877 TCCGGATACATCACT
66 TCCGGATACATCACT
56822892 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56822957 TCCGGATACATCACT
66 TCCGGATACATCACT
56822972 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56823037 TCCGGATACATCACT
66 TCCGGATACATCACT
56823052 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56823117 TCCGGATACATCACT
66 TCCGGATACATCACT
56823132 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56823197 TCCGGATACATCACT
66 TCCGGATACATCACT
56823212 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56823277 TCCGGATACATCACT
66 TCCGGATACATCACT
56823292 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
56823357 TCCGGATACATCACT
66 TCCGGATACATCACT
* * * *
56823372 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCCCTTCGGGACTTAG
1 AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
56823437 CCCGGATATATCACT
66 TCCGGATACATCACT
56823452 CTCAATTCTC
Statistics
Matches: 934, Mismatches: 25, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
79 4 0.00
80 930 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACGAATGCCCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
TCCGGATACATCACT
Found at i:56824195 original size:37 final size:37
Alignment explanation
Indices: 56824132--56824202 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
56824122 GCTCAGACGA
* *
56824132 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGAGTCTTACCCGGACAT
*
56824169 AATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AATCTCCACACGAAGTCATCGAGTCTTACCCGGA
56824203 ATATATTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGAAGTCATCGAGTCTTACCCGGACAT
Found at i:56824474 original size:48 final size:48
Alignment explanation
Indices: 56824348--56824532 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
56824338 GCACATCGCC
**
56824348 TACATATTTCACACAAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
56824398 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
56824446 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
56824494 TACATATTTCACATTAGCAATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
56824533 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 80 0.66
49 2 0.02
50 40 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:56824537 original size:98 final size:97
Alignment explanation
Indices: 56824348--56824531 Score: 273
Period size: 98 Copynumber: 1.9 Consensus size: 97
56824338 GCACATCGCC
*
56824348 TACATATTTCACACAAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACAAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
*
56824413 GACCATTCAGCTTTACCACATATGCATATCTCA
65 GACAATTCAGCTTTACCACATATGCATATCTCA
** * *
56824446 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-GTACATATTTCACATT-
1 TACATATTTCACACAAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
*
56824509 AGCAATTCGGCTTTACCACATAT
66 A-CAATTCAGCTTTACCACATAT
56824532 ATGCATGTTC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 1 0.01
96 33 0.42
98 44 0.56
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACAAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACAATTCAGCTTTACCACATATGCATATCTCA
Found at i:56824595 original size:47 final size:47
Alignment explanation
Indices: 56824502--56824695 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
56824492 CGTACATATT
* * * * * *
56824502 TCACATTAGCAATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCA
* * *
56824549 CCACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCA
*
56824596 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCA
* **
56824643 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCA
56824690 TCACAT
1 TCACAT
56824696 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCA
Found at i:56824622 original size:22 final size:22
Alignment explanation
Indices: 56824595--56824666 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
56824585 GCTCACATTC
56824595 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
56824617 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
56824641 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56824664 ATC
1 ATC
56824667 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56824623 original size:94 final size:93
Alignment explanation
Indices: 56824455--56824695 Score: 288
Period size: 94 Copynumber: 2.5 Consensus size: 93
56824445 ATACATATTT
* * * *
56824455 CACATTAGCCATTCGGCTTTA-CCACATATACATTTCTCGTACATAT-TTCACATTAGCAATTCG
1 CACATTGGCCATTCGGCCTTATCCACATATACA-TACTC--ACAT-TCATCACATTAGCAATTCG
* *
56824518 GCTTTACCACATATATGCATGTTCATATTCAC
62 GCCTTACCACATATATGCATGTTCACATTCAC
* * *
56824550 CACATTGGCCATTCGGCCTTATCACACATATACATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATC-CACATATACATACTCACATTCATCACATTAGCAATTCGGCC
* *
56824615 TTATCACATATATGCATGTTCACATTCAT
65 TTACCACATATATGCATGTTCACATTCAC
* * *
56824644 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATC-CACATATACATACTCACATTCATCACAT
56824696 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.73
95 19 0.15
96 5 0.04
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (93 bp):
CACATTGGCCATTCGGCCTTATCCACATATACATACTCACATTCATCACATTAGCAATTCGGCCT
TACCACATATATGCATGTTCACATTCAC
Found at i:56827313 original size:19 final size:19
Alignment explanation
Indices: 56827289--56827398 Score: 172
Period size: 19 Copynumber: 5.9 Consensus size: 19
56827279 ATAATCTTCA
*
56827289 ATGATATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
56827308 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
56827327 ATGAT-TGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
*
56827345 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
56827364 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
56827381 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
56827399 AGATATGTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
17 16 0.19
18 17 0.20
19 52 0.61
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:56827396 original size:36 final size:36
Alignment explanation
Indices: 56827281--56827396 Score: 171
Period size: 36 Copynumber: 3.2 Consensus size: 36
56827271 ATGGAAATAT
*
56827281 AATCTTCAATGAT-ATACAATCTTAGATATGATATGC
1 AATCTTAAAT-ATGATACAATCTTAGATATGATATGC
* * *
56827317 AATCTTAGATATGATTGCAATCTTAAATATGATATGC
1 AATCTTAAATATGA-TACAATCTTAGATATGATATGC
56827354 AATCTTAAATATGATACAATCTTAGATATGATATGC
1 AATCTTAAATATGATACAATCTTAGATATGATATGC
56827390 AATCTTA
1 AATCTTA
56827397 GAAGATATGT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
35 2 0.03
36 36 0.51
37 33 0.46
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (36 bp):
AATCTTAAATATGATACAATCTTAGATATGATATGC
Found at i:56829349 original size:86 final size:85
Alignment explanation
Indices: 56829252--56829410 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
56829242 TTTCGATATG
* * * *
56829252 TGATTTCGTGTAAGA-CCACGTTTGGGACATTGGCATCGAT-TTGAGATTTACGTGTAAGACAAT
1 TGATTTCGTGTAAGATCC-CGTCTGGGACAATGGCATCGATATT-AGA-TTACATGTAAGACAAC
56829315 GTCTGGGACATCAACATCGTATT
63 GTCTGGGACATCAACATCGTATT
* * * *
56829338 TGATTTCGTGTAAGATCCTGTCTGGGACAATGGCATTGATATTTGATTACATGTAAGACCACGTC
1 TGATTTCGTGTAAGATCCCGTCTGGGACAATGGCATCGATATTAGATTACATGTAAGACAACGTC
56829403 TGGGACAT
66 TGGGACAT
56829411 TGGCATTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 24 0.38
86 35 0.56
87 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (85 bp):
TGATTTCGTGTAAGATCCCGTCTGGGACAATGGCATCGATATTAGATTACATGTAAGACAACGTC
TGGGACATCAACATCGTATT
Found at i:56829360 original size:42 final size:40
Alignment explanation
Indices: 56829252--56829366 Score: 113
Period size: 44 Copynumber: 2.7 Consensus size: 40
56829242 TTTCGATATG
* * ***
56829252 TGATTTCGTGTAAGACCACGTTTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACC-TGTCTGGGACATCAACATCGATT
*
56829293 TGAGATTTACGTGTAAGACAATGTCTGGGACATCAACATCGTATT
1 T--GATTT-CGTGTAAGAC-CTGTCTGGGACATCAACATCG-ATT
56829338 TGATTTCGTGTAAGATCCTGTCTGGGACA
1 TGATTTCGTGTAAGA-CCTGTCTGGGACA
56829367 ATGGCATTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 20 0.33
43 11 0.18
44 25 0.41
45 4 0.07
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TGATTTCGTGTAAGACCTGTCTGGGACATCAACATCGATT
Found at i:56829418 original size:43 final size:43
Alignment explanation
Indices: 56829244--56829416 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
56829234 CATAGGATTT
* * *
56829244 TCGATATGTGATTTCGTGTAAGACCACGTTTGGGACATTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
* * * ***
56829287 TCGAT-TTGAGATTTACGTGTAAGACAATGTCTGGGACATCAACA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACATTGGCA
* * *
56829331 TCG-TATTTGATTTCGTGTAAGATCC-TGTCTGGGACAATGGCA
1 TCGATATTTGATTACGTGTAAGA-CCACGTCTGGGACATTGGCA
* *
56829373 TTGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
56829416 T
1 T
56829417 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 29 0.28
43 44 0.43
44 30 0.29
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:56836540 original size:8 final size:8
Alignment explanation
Indices: 56836528--56836560 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
56836518 AATAGGGACT
*
56836528 AAAATGTT
1 AAAATGTG
56836536 AAAATGTG
1 AAAATGTG
56836544 AAAATGTG
1 AAAATGTG
56836552 AAAATGTG
1 AAAATGTG
56836560 A
1 A
56836561 TGGCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (8 bp):
AAAATGTG
Found at i:56837082 original size:43 final size:43
Alignment explanation
Indices: 56836911--56837083 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
56836901 CATAAGATTT
* * *
56836911 TCGATATGTGATTTCGTGTAAGACTACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * ** * * * *
56836954 TCGATTTGAGATTTATGTGTAAGACCATGTTTGGGACATCGGCA
1 TCGATATGTGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
* * *
56836998 TCG-TATTTGATTTCGA-GTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGATATGTGATTAC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
56837040 TCGATATCTGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
56837083 T
1 T
56837084 TATACGAGCT
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
42 26 0.27
43 43 0.44
44 29 0.30
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:56839656 original size:33 final size:33
Alignment explanation
Indices: 56839619--56839725 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
56839609 ATCCCTCCAG
* *
56839619 CACACCAATGCTCAGAAGAACTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
* * * *
56839652 CACACCAGTGATCTTAAGAGTTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
* * * * *
56839685 AACACCAGTGCTTATAAGAGCTAGTCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
56839718 CACACCAA
1 CACACCAA
56839726 ACAAAGAGTA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAT
Found at i:56843858 original size:9 final size:9
Alignment explanation
Indices: 56843844--56843878 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
56843834 CATGTTATTA
56843844 TTTTTTTAG
1 TTTTTTTAG
*
56843853 TTTTTTTAA
1 TTTTTTTAG
56843862 TTTCTTTTAG
1 TTT-TTTTAG
56843872 TTTTTTT
1 TTTTTTT
56843879 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (9 bp):
TTTTTTTAG
Found at i:56843871 original size:19 final size:18
Alignment explanation
Indices: 56843843--56843878 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
56843833 TCATGTTATT
56843843 ATTTTTTTAGTTTTTTTA
1 ATTTTTTTAGTTTTTTTA
56843861 ATTTCTTTTAGTTTTTTT
1 ATTT-TTTTAGTTTTTTT
56843879 TTAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78
Consensus pattern (18 bp):
ATTTTTTTAGTTTTTTTA
Found at i:56846775 original size:55 final size:55
Alignment explanation
Indices: 56846700--56846811 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 55
56846690 GATCTGTAAG
* *
56846700 GGCTAATCAAACCTTTTTTCATGTGACCTGATATTCTAATAGTCTAATCTGAGTA
1 GGCTAATCAAACCCTTTTTCATGTGACCTGATATTCTAATAATCTAATCTGAGTA
* * *
56846755 GGCTAATCAAACCCTTTTTCATGTGATCTGATATTCTGATAATCTGATCTGAGTA
1 GGCTAATCAAACCCTTTTTCATGTGACCTGATATTCTAATAATCTAATCTGAGTA
56846810 GG
1 GG
56846812 AAACTGATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (55 bp):
GGCTAATCAAACCCTTTTTCATGTGACCTGATATTCTAATAATCTAATCTGAGTA
Found at i:56848956 original size:19 final size:20
Alignment explanation
Indices: 56848928--56848966 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56848918 AGTGCCTCTG
*
56848928 AATAATGAA-TATGTATAAA
1 AATAACGAATTATGTATAAA
56848947 AATAACGAATTTATGTATAA
1 AATAACGAA-TTATGTATAA
56848967 TGCCCGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (20 bp):
AATAACGAATTATGTATAAA
Found at i:56849088 original size:20 final size:20
Alignment explanation
Indices: 56849042--56849162 Score: 100
Period size: 20 Copynumber: 6.0 Consensus size: 20
56849032 TTGTACGGGA
* * *
56849042 TTGCACTTCGATGTCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* * *
56849062 ATACACTTTGGTGTCTCTGT
1 TTGCACTTTGGTGCCTCTGT
** *
56849082 TTGCACTACGGTGCCTCTGA
1 TTGCACTTTGGTGCCTCTGT
56849102 TTGCACATTT-GTGCCTCTGT
1 TTGCAC-TTTGGTGCCTCTGT
*
56849122 CTGCACTTTGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* *
56849142 TATGCAACTATGATGCCTCTG
1 T-TGC-ACTTTGGTGCCTCTG
56849163 GTGTGGTGTA
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.75
21 4 0.05
22 13 0.16
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:56852838 original size:37 final size:37
Alignment explanation
Indices: 56852797--56852874 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
56852787 TAAGCATTTT
* *
56852797 TTCTCCATGTCTTTCA-GTTTGA-AAACTAAGACGTTTC
1 TTCTCC-TGTCTTTCATG-CTGAGAAACTAAGACGCTTC
* *
56852834 TTCTCCTTTTTTTCATGCTGAGAAACTAAGACGCTTC
1 TTCTCCTGTCTTTCATGCTGAGAAACTAAGACGCTTC
56852871 TTCT
1 TTCT
56852875 TCTTTTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (37 bp):
TTCTCCTGTCTTTCATGCTGAGAAACTAAGACGCTTC
Done.