Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
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: 8984705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 112788 characters in sequence are not A, C, G, or T
File 11 of 20
Found at i:3876878 original size:22 final size:22
Alignment explanation
Indices: 3876853--3876900 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3876843 GTTATTAGAC
* *
3876853 ATTGCATTATTGATTTTTAAAT
1 ATTGCATCACTGATTTTTAAAT
**
3876875 ATTGTGTCACTGATTTTTAAAT
1 ATTGCATCACTGATTTTTAAAT
3876897 ATTG
1 ATTG
3876901 TGAGATTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (22 bp):
ATTGCATCACTGATTTTTAAAT
Found at i:3876913 original size:22 final size:22
Alignment explanation
Indices: 3876863--3876921 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
3876853 ATTGCATTAT
*
3876863 TGATTTTTAAATATTGTGTCAC
1 TGATTTTTAAATATTGTGACAC
*
3876885 TGATTTTTAAATATTGTGAGA-
1 TGATTTTTAAATATTGTGACAC
*
3876906 TTAGTTTTTAAATATT
1 TGA-TTTTTAAATATT
3876922 ACATAACTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (22 bp):
TGATTTTTAAATATTGTGACAC
Found at i:3877016 original size:22 final size:23
Alignment explanation
Indices: 3876991--3877037 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
3876981 GCTTAAAAAT
3876991 CAATCACACAATT-TCTATCAAC
1 CAATCACACAATTCTCTATCAAC
*
3877013 CAATCACGCAATTCTCTATCAAC
1 CAATCACACAATTCTCTATCAAC
3877036 CA
1 CA
3877038 GCCATGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.38, C:0.34, G:0.02, T:0.26
Consensus pattern (23 bp):
CAATCACACAATTCTCTATCAAC
Found at i:3883041 original size:3 final size:3
Alignment explanation
Indices: 3883035--3883061 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3883025 AATAATAATA
3883035 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
3883062 GGAGAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3883481 original size:2 final size:2
Alignment explanation
Indices: 3883468--3883502 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3883458 GCACATTTAA
*
3883468 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3883503 CAAAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3884648 original size:88 final size:89
Alignment explanation
Indices: 3884508--3884715 Score: 222
Period size: 88 Copynumber: 2.3 Consensus size: 89
3884498 TATGCACGAG
* * *
3884508 GAAAAGGAAAAAAATAAAGAATTTCAAGATAAAAGGGTAAATCAATCCTAAAAAGAAAGTAAAAA
1 GAAAAGG--AAAAA-AAATAATTTCAAGAAAAAAGAGTAAATCAATCCTAAAAAGAAAGTAAAAA
* *
3884573 TTAATAATATA-TTTTCTATGAATCAA
63 TCAATAATATATTTTTCTATAAATCAA
* * * * *
3884599 GAAAAGGGAAAAAAATAATTTCAA-AAAAAAGAAGTAAATCAATCTTAAAAGGACAGTAAATATC
1 GAAAAGGAAAAAAAATAATTTCAAGAAAAAAG-AGTAAATCAATCCTAAAAAGAAAGTAAAAATC
* * * *
3884663 GATAATATATTTTTTTATAAATGAG
65 AATAATATATTTTTCTATAAATCAA
3884688 GAAAAGGAAAAAACCAATAATTTCAAGA
1 GAAAAGGAAAAAA--AATAATTTCAAGA
3884716 TAATGTGGTA
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
87 6 0.06
88 45 0.46
89 27 0.28
91 18 0.19
92 1 0.01
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (89 bp):
GAAAAGGAAAAAAAATAATTTCAAGAAAAAAGAGTAAATCAATCCTAAAAAGAAAGTAAAAATCA
ATAATATATTTTTCTATAAATCAA
Found at i:3884741 original size:91 final size:87
Alignment explanation
Indices: 3884484--3884749 Score: 264
Period size: 91 Copynumber: 3.0 Consensus size: 87
3884474 TATTATTGGA
* * *
3884484 AATAATATATTTTTTATGCACGAGGAAAAGGAAAAAAATAAAGAATTTCAAGATAAAAGGGTAAA
1 AATAATATATTTTTTATGAATGAGGAAAAGG--AAAAA-AAATAATTTCAAGAT-AAAGGGTAAA
* * *
3884549 TCAATCCTAAAAAGAAAGTAAAAATT
62 TCAATTCTAAAAGGAAAGTAAAAATC
* * * * * * *
3884575 AATAATATATTTTCTATGAATCAAGAAAAGGGAAAAAAATAATTTCAAAAAAAAGAAGTAAATCA
1 AATAATATATTTTTTATGAATGAGGAAAAGGAAAAAAAATAATTTCAAGATAAAG-GGTAAATCA
* *
3884640 A-TCTTAAAAGGACAGTAAATATC
65 ATTC-TAAAAGGAAAGTAAAAATC
* * *
3884663 GATAATATATTTTTTTATAAATGAGGAAAAGGAAAAAACCAATAATTTCAAGATAATGTGGTAAA
1 AATAATATA-TTTTTTATGAATGAGGAAAAGGAAAAAA--AATAATTTCAAGATAAAG-GGTAAA
*
3884728 TCAATTCTCAAAGGAAAGTAAA
62 TCAATTCTAAAAGGAAAGTAAA
3884750 CATCCTCCTT
Statistics
Matches: 141, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
87 5 0.04
88 44 0.31
89 27 0.19
91 63 0.45
92 2 0.01
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (87 bp):
AATAATATATTTTTTATGAATGAGGAAAAGGAAAAAAAATAATTTCAAGATAAAGGGTAAATCAA
TTCTAAAAGGAAAGTAAAAATC
Found at i:3887213 original size:17 final size:17
Alignment explanation
Indices: 3887191--3887237 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
3887181 TAATATTTTG
**
3887191 ATTAATTATAATTATTT
1 ATTAATTATAAAAATTT
3887208 ATTAATTATAAAAATTT
1 ATTAATTATAAAAATTT
3887225 ATTTAATT-TAAAA
1 A-TTAATTATAAAA
3887238 TTAAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATTATAAAAATTT
Found at i:3901858 original size:12 final size:13
Alignment explanation
Indices: 3901841--3901871 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
3901831 ATTATAACTT
3901841 AATAATAAAAT-A
1 AATAATAAAATAA
3901853 AATAATAAAATAA
1 AATAATAAAATAA
3901866 AATAAT
1 AATAAT
3901872 CTTACTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAATAAAATAA
Found at i:3907765 original size:24 final size:23
Alignment explanation
Indices: 3907734--3907778 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
3907724 TACAGTTGGT
3907734 AAAAATTTGAAAGGTCATTTGTG
1 AAAAATTTGAAAGGTCATTTGTG
*
3907757 AAAAGATTTGAAAGGTTATTTG
1 AAAA-ATTTGAAAGGTCATTTG
3907779 GATGTGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (23 bp):
AAAAATTTGAAAGGTCATTTGTG
Found at i:3910320 original size:18 final size:18
Alignment explanation
Indices: 3910293--3910328 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3910283 ATGGCTGACC
*
3910293 ACATGGACTCCAAGACTT
1 ACATGAACTCCAAGACTT
3910311 ACATGAACTCCAAGACTT
1 ACATGAACTCCAAGACTT
3910329 GGATTGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (18 bp):
ACATGAACTCCAAGACTT
Found at i:3917724 original size:12 final size:12
Alignment explanation
Indices: 3917707--3917742 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
3917697 AGTAAGAGTG
3917707 ATTAATTTTTAA
1 ATTAATTTTTAA
3917719 ATTAATTTTTAA
1 ATTAATTTTTAA
3917731 ATTAATTTTTAA
1 ATTAATTTTTAA
3917743 TATTTTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTAATTTTTAA
Found at i:3919763 original size:82 final size:82
Alignment explanation
Indices: 3919668--3919827 Score: 284
Period size: 82 Copynumber: 2.0 Consensus size: 82
3919658 CATGTAATGT
* * *
3919668 TAAAATAAATCTTCCAACTACATCATTTATTCTAAATGAAGTACCTCAAAGTCTATTAAAGTCAA
1 TAAAATAAATCTTCCAACTACATCATTTATCCTAAATAAAGTACCTCAAAGTCTATTAAAGCCAA
3919733 GCTAAAATGTTGAAGGC
66 GCTAAAATGTTGAAGGC
*
3919750 TAAAATAAATCTTCCAACTACATCATTTATCCTGAATAAAGTACCTCAAAGTCTATTAAAGCCAA
1 TAAAATAAATCTTCCAACTACATCATTTATCCTAAATAAAGTACCTCAAAGTCTATTAAAGCCAA
3919815 GCTAAAATGTTGA
66 GCTAAAATGTTGA
3919828 TAAAGTCTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (82 bp):
TAAAATAAATCTTCCAACTACATCATTTATCCTAAATAAAGTACCTCAAAGTCTATTAAAGCCAA
GCTAAAATGTTGAAGGC
Found at i:3920734 original size:170 final size:170
Alignment explanation
Indices: 3920381--3920785 Score: 402
Period size: 170 Copynumber: 2.4 Consensus size: 170
3920371 CGAATGTTGA
* * * * *
3920381 ACCCATGATTAGATGGCTAGATGGGCAACTCTCTTTGTATTGTTTAGTTTTACTTTATGTTGTTA
1 ACCCATAATTAGATGACTAGATGGGCAACTCTCTTTGTATTGTTCAATTTTACTTTATGTTATTA
* * ** * * * * * * *
3920446 TTATTTTAATTGTGTTGTATAAGCATATAATATTAATAGTTATATGAATAAATACGAGTATAATA
66 ATATCTTAATCATATTATATAAACATATAATATTAATAATTATATAAATAAATACGAGCATAACA
*
3920511 TGATTAACTAATTATGTCAGAATTCGAAAAAAGCAAACAG
131 CGATTAACTAATTATGTCAGAATTCGAAAAAAGCAAACAG
* * * * * * *
3920551 ACCCATGATTAGATGACTAGATGGGTAAGTTTTTTTGTATTGTTCAATTTTATTTTGTGTTATTA
1 ACCCATAATTAGATGACTAGATGGGCAACTCTCTTTGTATTGTTCAATTTTACTTTATGTTATTA
*
3920616 ATATCTTAATCATATTATATAAACATATAATATTAATAATTATATAAATAAATATGAGCATAACA
66 ATATCTTAATCATATTATATAAACATATAATATTAATAATTATATAAATAAATACGAGCATAACA
* * * ** * * *
3920681 CGATTGA-TGAA-TAGTGTTAGAATTTGAAAACCGTATACGG
131 CGATTAACT-AATTA-TGTCAGAATTCGAAAAAAGCAAACAG
* * ** * **
3920721 ACTCATAATTAGATGCCTAGATGGGCAGGTCTCTCTGTATTGTTTGATTTTA-TATTATGTTATT
1 ACCCATAATTAGATGACTAGATGGGCAACTCTCTTTGTATTGTTCAATTTTACT-TTATGTTATT
3920785 A
65 A
3920786 CTTTGTACAA
Statistics
Matches: 190, Mismatches: 42, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
169 4 0.02
170 186 0.98
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (170 bp):
ACCCATAATTAGATGACTAGATGGGCAACTCTCTTTGTATTGTTCAATTTTACTTTATGTTATTA
ATATCTTAATCATATTATATAAACATATAATATTAATAATTATATAAATAAATACGAGCATAACA
CGATTAACTAATTATGTCAGAATTCGAAAAAAGCAAACAG
Found at i:3921372 original size:61 final size:61
Alignment explanation
Indices: 3921259--3921376 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 61
3921249 TATTTTAGGC
* * *
3921259 ATTTTGAAGTAATTTTTTATACATGAAGAAAATGTTTTGAACGTTTTGAGCATTTTTAAGT
1 ATTTTGAAGTAATTTTTGATACATGAAGAAAATGCTTTGAACGTTTTAAGCATTTTTAAGT
3921320 ATTTTGAAGTAATTTTTGATACATGAAGAAAAAT-CTTT-AA-GTATTTTAAGCATTTTT
1 ATTTTGAAGTAATTTTTGATACATGAAG-AAAATGCTTTGAACG--TTTTAAGCATTTTT
3921377 CATTAAGTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
59 1 0.02
60 2 0.04
61 43 0.84
62 5 0.10
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (61 bp):
ATTTTGAAGTAATTTTTGATACATGAAGAAAATGCTTTGAACGTTTTAAGCATTTTTAAGT
Found at i:3921752 original size:21 final size:21
Alignment explanation
Indices: 3921700--3921752 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
3921690 ATTAGTCTTG
* *
3921700 CAATATCTAAAAATTAATGACA
1 CAATATCT-AAAATCAATAACA
** *
3921722 CAATGCCTAAAATCAATAATA
1 CAATATCTAAAATCAATAACA
3921743 CAATATCTAA
1 CAATATCTAA
3921753 TAACTAATTG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (21 bp):
CAATATCTAAAATCAATAACA
Found at i:3928829 original size:29 final size:29
Alignment explanation
Indices: 3928787--3928846 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
3928777 GACTAGTGTC
3928787 ACGAAAAAAGTGCCTCTATCTCACATTGG
1 ACGAAAAAAGTGCCTCTATCTCACATTGG
*
3928816 ACGAAGAAAGTGCCTCTATCTCACATTGG
1 ACGAAAAAAGTGCCTCTATCTCACATTGG
3928845 AC
1 AC
3928847 AGGAACGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (29 bp):
ACGAAAAAAGTGCCTCTATCTCACATTGG
Found at i:3935575 original size:3 final size:3
Alignment explanation
Indices: 3935567--3935593 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3935557 ATAAGGTTAT
3935567 TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG
3935594 AAAATTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:3942341 original size:20 final size:20
Alignment explanation
Indices: 3942316--3942396 Score: 153
Period size: 20 Copynumber: 4.0 Consensus size: 20
3942306 ACTTTTCATT
*
3942316 ATAGTTTGTTCAAACTATTA
1 ATAGTTTGCTCAAACTATTA
3942336 ATAGTTTGCTCAAACTATTA
1 ATAGTTTGCTCAAACTATTA
3942356 ATAGTTTGCTCAAACTATTA
1 ATAGTTTGCTCAAACTATTA
3942376 ATAGTTTGCTCAAACTATTA
1 ATAGTTTGCTCAAACTATTA
3942396 A
1 A
3942397 GAGATGACAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (20 bp):
ATAGTTTGCTCAAACTATTA
Found at i:3942572 original size:21 final size:21
Alignment explanation
Indices: 3942542--3942582 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3942532 AGGGATTGAA
*
3942542 GTGAATGTTGCACCAAATCAG
1 GTGAACGTTGCACCAAATCAG
3942563 GTGAACGTTGCACCAAATCA
1 GTGAACGTTGCACCAAATCA
3942583 AGGAGTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (21 bp):
GTGAACGTTGCACCAAATCAG
Found at i:3942828 original size:133 final size:133
Alignment explanation
Indices: 3942591--3943116 Score: 761
Period size: 133 Copynumber: 4.0 Consensus size: 133
3942581 CAAGGAGTTG
* *
3942591 AGAAAAAGCCTCTTAACCT-GGTCAG-CAGTATACTTAGTCAGGCATATGTTGTAGCAAAATTAA
1 AGAAAAAGCCTCTTAACCTAGG-CAGCCTGTATACTTAGTCAGGTATATGTTGTAGCAAAATTAA
* *
3942654 GAGAGTCATCAGCATGGTAGAGGTATGGTAGAGTACTTAGTCAGATAGACGTTAGAGCAAAACCA
65 GAGAGTCATCAGCATGGTAGAGGTATGGTAGAGTATTTAGTCAGATAGACATTAGAGCAAAACCA
3942719 AGAA
130 AGAA
*
3942723 AGAAAAAGCCTCTTAACCTAGGCAGCCTGTATACTTAGTCAGGTATATGTTGTAGCAAAATTAGG
1 AGAAAAAGCCTCTTAACCTAGGCAGCCTGTATACTTAGTCAGGTATATGTTGTAGCAAAATTAAG
* * * * *
3942788 AGAGTCATCAGCGTGGTAGAGGTATGGTAGAGTATTTAGTCAGATAGACGTCAGAGTAAAACCAG
66 AGAGTCATCAGCATGGTAGAGGTATGGTAGAGTATTTAGTCAGATAGACATTAGAGCAAAACCAA
3942853 GAA
131 GAA
* *
3942856 AGAAAAAGCCTCTTAACCTAGGTAGCCTGTATACTTAGTCAGGTATATGTTGAAGCAAAATTAAG
1 AGAAAAAGCCTCTTAACCTAGGCAGCCTGTATACTTAGTCAGGTATATGTTGTAGCAAAATTAAG
* *
3942921 AGAGTCATCAGCATGGTAGAGGTATGGTAGAGTACTTT-GTCAGAAAGAAATTAGAGCAAAACCA
66 AGAGTCATCAGCATGGTAGAGGTATGGTAGAGTA-TTTAGTCAGATAGACATTAGAGCAAAACCA
3942985 AGAA
130 AGAA
* * * * * * *
3942989 AGAAAAAAACCTCTTAACCTGGGCAACATGTATACTTAGTCAAGTATACGTTGTAGCAAAATTAG
1 AG-AAAAAGCCTCTTAACCTAGGCAGCCTGTATACTTAGTCAGGTATATGTTGTAGCAAAATTAA
* * * * * *
3943054 GAGAGTCACCAGCATGGTAAATGTATGGCAGAGTAATTAGTCAAATAGACATTAGAGCAAAAC
65 GAGAGTCATCAGCATGGTAGAGGTATGGTAGAGTATTTAGTCAGATAGACATTAGAGCAAAAC
3943117 TAGGAAAGTT
Statistics
Matches: 354, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
132 22 0.06
133 224 0.63
134 108 0.31
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (133 bp):
AGAAAAAGCCTCTTAACCTAGGCAGCCTGTATACTTAGTCAGGTATATGTTGTAGCAAAATTAAG
AGAGTCATCAGCATGGTAGAGGTATGGTAGAGTATTTAGTCAGATAGACATTAGAGCAAAACCAA
GAA
Found at i:3950698 original size:90 final size:92
Alignment explanation
Indices: 3950576--3950749 Score: 264
Period size: 90 Copynumber: 1.9 Consensus size: 92
3950566 TCACGTGTTT
* *
3950576 ACTATTTTTTTCTAATATACATGCTAAGCACATATGCTTCTTTTAGTGAAAATACAAGTTGTATT
1 ACTATTTTTTTCTAATATACACGCTAAGCACATATGCTTCTTTTAGTGAAAATACAAGTTGTACT
3950641 GCTTTTGTTTTTCTTTAAATTTGAAAA
66 GCTTTTGTTTTTCTTTAAATTTGAAAA
** * *
3950668 ACTA-TTTTTTC-AATATACACGCTCAA-CACATATGCTTCTTTTAGTGTTAATACGATTTGTAC
1 ACTATTTTTTTCTAATATACACGCT-AAGCACATATGCTTCTTTTAGTGAAAATACAAGTTGTAC
3950730 TGCTTTTGTTTTTCTTTAAA
65 TGCTTTTGTTTTTCTTTAAA
3950750 ATAATCATGA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
90 62 0.83
91 9 0.12
92 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.47
Consensus pattern (92 bp):
ACTATTTTTTTCTAATATACACGCTAAGCACATATGCTTCTTTTAGTGAAAATACAAGTTGTACT
GCTTTTGTTTTTCTTTAAATTTGAAAA
Found at i:3951033 original size:69 final size:68
Alignment explanation
Indices: 3950917--3951051 Score: 189
Period size: 69 Copynumber: 2.0 Consensus size: 68
3950907 GAAAGAAAAC
* * *
3950917 TGTAGAGAAAGATGTTTACAATGCTGACTTTGACAAACAACCTTTAACCTTTTAATTTCATCTAG
1 TGTAGAGAAAGATGCTTACAATGCTGACTTTGACAAACAACCATTAACCTTGTAATTT-ATCTAG
3950982 TTGT
65 TTGT
* * * * *
3950986 TGTAGAGAAAGATGCTTACACTGCTGATTTTGACAAAGAATCATTAACCTTGTCATTTATCTAGT
1 TGTAGAGAAAGATGCTTACAATGCTGACTTTGACAAACAACCATTAACCTTGTAATTTATCTAGT
3951051 T
66 T
3951052 ACCCTTTCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 8 0.14
69 50 0.86
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (68 bp):
TGTAGAGAAAGATGCTTACAATGCTGACTTTGACAAACAACCATTAACCTTGTAATTTATCTAGT
TGT
Found at i:3952786 original size:18 final size:19
Alignment explanation
Indices: 3952763--3952802 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3952753 ACTATTATTA
*
3952763 AATAATCTA-TCAAAAAAT
1 AATAATATATTCAAAAAAT
*
3952781 AATAATATATTTAAAAAAT
1 AATAATATATTCAAAAAAT
3952800 AAT
1 AAT
3952803 GAGGTGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATATATTCAAAAAAT
Found at i:3969072 original size:13 final size:13
Alignment explanation
Indices: 3969054--3969082 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3969044 TAAGAATGCC
3969054 CTTAGAAAAATAG
1 CTTAGAAAAATAG
3969067 CTTAGAAAAATAG
1 CTTAGAAAAATAG
3969080 CTT
1 CTT
3969083 TAACCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (13 bp):
CTTAGAAAAATAG
Found at i:3989427 original size:17 final size:17
Alignment explanation
Indices: 3989398--3989439 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
3989388 CATTCAGGTA
3989398 TTATTTT-TTTTTC-TT
1 TTATTTTCTTTTTCATT
3989413 TCTATTTTCTTTTTCATT
1 T-TATTTTCTTTTTCATT
3989431 TTATTTTCT
1 TTATTTTCT
3989440 ATCTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 6 0.25
17 14 0.58
18 3 0.12
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTATTTTCTTTTTCATT
Found at i:3991694 original size:2 final size:2
Alignment explanation
Indices: 3991687--3991719 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3991677 CCCTCAATAA
*
3991687 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3991720 ATCGCTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3991700 original size:12 final size:12
Alignment explanation
Indices: 3991683--3991719 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
3991673 TAACCCCTCA
3991683 ATAAATATATAT
1 ATAAATATATAT
3991695 ATAAATATATAT
1 ATAAATATATAT
*
3991707 ATATATATATAT
1 ATAAATATATAT
3991719 A
1 A
3991720 ATCGCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:3995414 original size:2 final size:2
Alignment explanation
Indices: 3995407--3995439 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3995397 TCATAAAAAT
3995407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3995440 TTACACAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4003166 original size:33 final size:36
Alignment explanation
Indices: 4003114--4003199 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
4003104 CTAACTCCTC
**
4003114 TTTCTTTCTTTTTTCTTCCCATAGTTGCT-C-T-TTCT
1 TTTCTTTC--TTTTCTTCCCATAGCCGCTCCTTCTTCT
* *
4003149 TTTTTTTCTTTTCTTCCCCTAGCCGCTCCTTCTTCT
1 TTTCTTTCTTTTCTTCCCATAGCCGCTCCTTCTTCT
4003185 TTTCTTTCTTTTCTT
1 TTTCTTTCTTTTCTT
4003200 AGTTATTCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 16 0.37
34 1 0.02
35 8 0.19
36 18 0.42
ACGTcount: A:0.03, C:0.29, G:0.05, T:0.63
Consensus pattern (36 bp):
TTTCTTTCTTTTCTTCCCATAGCCGCTCCTTCTTCT
Found at i:4017774 original size:26 final size:27
Alignment explanation
Indices: 4017731--4017781 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
4017721 TTAAATAACT
*
4017731 TTTTTAGTTATTTAATTTTTAAAAAAA
1 TTTTTAGTTATTTAATTTTGAAAAAAA
4017758 TTTTT-GTTATATT-ATTTTGAAAAA
1 TTTTTAGTTAT-TTAATTTTGAAAAA
4017782 TAAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTTAGTTATTTAATTTTGAAAAAAA
Found at i:4019215 original size:28 final size:28
Alignment explanation
Indices: 4019164--4019233 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
4019154 NNNTTGTGAG
* ** *
4019164 AAAAGAGAA-ATAAAACTAAAAAGACAC
1 AAAAGAGAAGAGAAAAAGAAAAAGACAA
*
4019191 AAAAGAGAAGAGAAAAAGAAAAAGAGAA
1 AAAAGAGAAGAGAAAAAGAAAAAGACAA
* *
4019219 AAAAGTGTAGAGAAA
1 AAAAGAGAAGAGAAA
4019234 CTTAAATTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 9 0.26
28 26 0.74
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.06
Consensus pattern (28 bp):
AAAAGAGAAGAGAAAAAGAAAAAGACAA
Found at i:4020273 original size:37 final size:36
Alignment explanation
Indices: 4020232--4020317 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
4020222 CATTGTCACG
** * *
4020232 TTAAAAAGAAATATTGTCAGTTTTATCTTATCATATT
1 TTAAAAAGAAA-ACAGTCAATTTTATCTTATCACATT
* *
4020269 TTAAAAAGGAAAACAGTCAATTTTATCTTTTCACGTT
1 TTAAAAA-GAAAACAGTCAATTTTATCTTATCACATT
4020306 TTAAAAAGAAAA
1 TTAAAAAGAAAA
4020318 GTAATCAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 5 0.12
37 33 0.79
38 4 0.10
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (36 bp):
TTAAAAAGAAAACAGTCAATTTTATCTTATCACATT
Found at i:4020330 original size:37 final size:37
Alignment explanation
Indices: 4020248--4020330 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
4020238 AGAAATATTG
* *
4020248 TCAGTTTTATCTTATCATATTTTAAAAAGGAAAACAG
1 TCAGTTTTATCTTATCACATTTTAAAAAGGAAAACAA
* * * *
4020285 TCAATTTTATCTTTTCACGTTTTAAAAA-GAAAAGTAA
1 TCAGTTTTATCTTATCACATTTTAAAAAGGAAAA-CAA
4020322 TCAGTTTTA
1 TCAGTTTTA
4020331 AAAGTAGTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 5 0.13
37 33 0.87
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (37 bp):
TCAGTTTTATCTTATCACATTTTAAAAAGGAAAACAA
Found at i:4020430 original size:35 final size:35
Alignment explanation
Indices: 4020384--4020458 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
4020374 GCGACCGTCA
* *
4020384 AAAGAAGTTAACCTTAGAGAAGAAGAAAGATAGAG
1 AAAGAAGTTAACCCTAGAGAAAAAGAAAGATAGAG
* *
4020419 AAAGAATTTAACCCTAGCGAAAAAGAAAGATAGAG
1 AAAGAAGTTAACCCTAGAGAAAAAGAAAGATAGAG
4020454 AAAGA
1 AAAGA
4020459 GGAAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.56, C:0.08, G:0.23, T:0.13
Consensus pattern (35 bp):
AAAGAAGTTAACCCTAGAGAAAAAGAAAGATAGAG
Found at i:4021749 original size:2 final size:2
Alignment explanation
Indices: 4021742--4021767 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4021732 TGCTATAATC
4021742 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4021768 AAAGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4021819 original size:26 final size:25
Alignment explanation
Indices: 4021773--4021832 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
4021763 ATATAAAAGA
4021773 AAATATGATCTCTGCTCTGGTTTTTG
1 AAATATGATCTCTGCTCTGG-TTTTG
* *
4021799 AAATATGATCTC-GATTTTGGTTTTG
1 AAATATGATCTCTG-CTCTGGTTTTG
*
4021824 AAATGTGAT
1 AAATATGAT
4021833 TTTTGTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (25 bp):
AAATATGATCTCTGCTCTGGTTTTG
Found at i:4022154 original size:41 final size:41
Alignment explanation
Indices: 4022087--4022200 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
4022077 ATCATACCAC
* * *
4022087 CGGTTATAACATAGTGGTATTTGTGATATTTATCGCACTAT
1 CGGTAATAAAATAGTGGTATTTGTGATATTTATCACACTAT
* *
4022128 CGGTAATAAAATAGTGGTATTTGTGATATTTGTCACATTAT
1 CGGTAATAAAATAGTGGTATTTGTGATATTTATCACACTAT
* *
4022169 CGATAATAGAATAGTGGTATTTGTGATATTTA
1 CGGTAATAAAATAGTGGTATTTGTGATATTTA
4022201 CCTACACAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (41 bp):
CGGTAATAAAATAGTGGTATTTGTGATATTTATCACACTAT
Found at i:4028494 original size:12 final size:12
Alignment explanation
Indices: 4028477--4028502 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4028467 TATTTTTTTT
4028477 AAATTAATAAAA
1 AAATTAATAAAA
4028489 AAATTAATAAAA
1 AAATTAATAAAA
4028501 AA
1 AA
4028503 TTATATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATTAATAAAA
Found at i:4028510 original size:12 final size:11
Alignment explanation
Indices: 4028477--4028510 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
4028467 TATTTTTTTT
4028477 AAATTAATAAAA
1 AAATTAAT-AAA
4028489 AAATTAATAAA
1 AAATTAATAAA
4028500 AAATTATATAA
1 AAATTA-ATAA
4028511 CAGTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATTAATAAA
Found at i:4038833 original size:20 final size:20
Alignment explanation
Indices: 4038810--4038864 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
4038800 AATTTTTATA
* *
4038810 TTATTATTTTAAGATTAAAT
1 TTATTATTTTAAAAATAAAT
* * *
4038830 TTATAAATTAAAAAATAAAT
1 TTATTATTTTAAAAATAAAT
4038850 TTATT-TTTTAAAAAT
1 TTATTATTTTAAAAAT
4038865 TTATATCATT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTATTATTTTAAAAATAAAT
Found at i:4038939 original size:2 final size:2
Alignment explanation
Indices: 4038932--4038958 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4038922 TTACAACTAG
4038932 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4038959 TATTAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4050294 original size:41 final size:41
Alignment explanation
Indices: 4050237--4050319 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
4050227 ACTGATTTCA
*
4050237 TAATTGTAATAATTTTACAATTCTCTTGAAGGTCTTTATGT
1 TAATTGTAATAATTTTACAATTCTCTTGAAGGCCTTTATGT
*
4050278 TAATTGTAATAATTTTACAATTCTCTTGAATGCCTTTATGT
1 TAATTGTAATAATTTTACAATTCTCTTGAAGGCCTTTATGT
4050319 T
1 T
4050320 TCATGGGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (41 bp):
TAATTGTAATAATTTTACAATTCTCTTGAAGGCCTTTATGT
Found at i:4062089 original size:27 final size:27
Alignment explanation
Indices: 4062050--4062101 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
4062040 CAGCATTCTT
* *
4062050 TCTTGTAATGATTTAAGTCCAACCATA
1 TCTTGTAACGATTCAAGTCCAACCATA
4062077 TCTTGTAACGATTCAAGTCCAACCA
1 TCTTGTAACGATTCAAGTCCAACCA
4062102 CTGGTCCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (27 bp):
TCTTGTAACGATTCAAGTCCAACCATA
Found at i:4062145 original size:13 final size:13
Alignment explanation
Indices: 4062129--4062154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4062119 GTTAAAACAA
4062129 CTTATTAAATCCT
1 CTTATTAAATCCT
4062142 CTTATTAAATCCT
1 CTTATTAAATCCT
4062155 TTCAAGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CTTATTAAATCCT
Found at i:4062180 original size:41 final size:41
Alignment explanation
Indices: 4062123--4062200 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
4062113 CCAGCAGTTA
4062123 AAACAACTTATTAAATCCTCTTATTAAATCCTTTCAAGCCC
1 AAACAACTTATTAAATCCTCTTATTAAATCCTTTCAAGCCC
*
4062164 AAACAGCTTATTAAATCCTCTTATTAAATCCTTTCAA
1 AAACAACTTATTAAATCCTCTTATTAAATCCTTTCAA
4062201 AAGATAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (41 bp):
AAACAACTTATTAAATCCTCTTATTAAATCCTTTCAAGCCC
Found at i:4062188 original size:13 final size:13
Alignment explanation
Indices: 4062170--4062195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4062160 GCCCAAACAG
4062170 CTTATTAAATCCT
1 CTTATTAAATCCT
4062183 CTTATTAAATCCT
1 CTTATTAAATCCT
4062196 TTCAAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CTTATTAAATCCT
Found at i:4068258 original size:26 final size:25
Alignment explanation
Indices: 4068227--4068279 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4068217 AATGACAATA
4068227 GAGGGGAGTTCACTTCAAATGAGAGT
1 GAGGGG-GTTCACTTCAAATGAGAGT
* * *
4068253 GAGGGGTTTTACTTTAAATGAGAGT
1 GAGGGGGTTCACTTCAAATGAGAGT
4068278 GA
1 GA
4068280 AGGGTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.30, C:0.08, G:0.34, T:0.28
Consensus pattern (25 bp):
GAGGGGGTTCACTTCAAATGAGAGT
Found at i:4068271 original size:25 final size:25
Alignment explanation
Indices: 4068238--4068288 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4068228 AGGGGAGTTC
*
4068238 ACTTCAAATGAGAGTGAGGGGTTTT
1 ACTTCAAATGAGAGTGAAGGGTTTT
*
4068263 ACTTTAAATGAGAGTGAAGGGTTTT
1 ACTTCAAATGAGAGTGAAGGGTTTT
4068288 A
1 A
4068289 TCTACTGCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.33
Consensus pattern (25 bp):
ACTTCAAATGAGAGTGAAGGGTTTT
Found at i:4098350 original size:31 final size:29
Alignment explanation
Indices: 4098306--4098364 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
4098296 GTCGATTTTT
* *
4098306 TTTAATAATATTTAAATAAATTTTTTATTTA
1 TTTAAAAAAATTTAAA-AAA-TTTTTATTTA
4098337 TTTAAAAAAATTTAAAAAATTTTTATTT
1 TTTAAAAAAATTTAAAAAATTTTTATTT
4098365 TTTCATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 9 0.35
30 3 0.12
31 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTAAAAAAATTTAAAAAATTTTTATTTA
Found at i:4103824 original size:48 final size:48
Alignment explanation
Indices: 4103746--4103845 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
4103736 GTCAAACAAG
* *
4103746 GATTTGCCTCCATGAAATCTATATCCTAAATTTTCACCATAATTTTTT
1 GATTTGCCTCCATGAAATCTATATCCTAAATCTTCACCATAATTTTCT
*
4103794 GATTTGCCTCCATGAAATCTACT-TCTTAAATCTTCACCATAATTTTCT
1 GATTTGCCTCCATGAAATCTA-TATCCTAAATCTTCACCATAATTTTCT
4103842 GATT
1 GATT
4103846 ATCACAAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
48 47 0.98
49 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (48 bp):
GATTTGCCTCCATGAAATCTATATCCTAAATCTTCACCATAATTTTCT
Found at i:4109346 original size:18 final size:18
Alignment explanation
Indices: 4109323--4109363 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4109313 TGTCATTTCT
4109323 CTTTTT-TTTCCTTTCTTC
1 CTTTTTCTTT-CTTTCTTC
*
4109341 CTTTTTCTTTCTTTTTTC
1 CTTTTTCTTTCTTTCTTC
4109359 CTTTT
1 CTTTT
4109364 CTATTTTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTTTTCTTTCTTTCTTC
Found at i:4109352 original size:30 final size:29
Alignment explanation
Indices: 4109283--4109363 Score: 73
Period size: 30 Copynumber: 2.8 Consensus size: 29
4109273 TTTTTACTGA
*
4109283 TTTCTTTCTTCTTTTTTTTTCTTTTTCTAC
1 TTTCTTTC-TCTTTTTTTTCCTTTTTCTAC
*
4109313 TGTCATTTCTCTTTTTTTTCCTTTCTTC--C
1 TTTC-TTTCTCTTTTTTTTCCTTT-TTCTAC
4109342 -TT-TTTCT-TTCTTTTTTCCTTTT
1 TTTCTTTCTCTT-TTTTTTCCTTTT
4109364 CTATTTTAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
28 1 0.02
29 1 0.02
30 17 0.38
31 7 0.16
ACGTcount: A:0.02, C:0.22, G:0.01, T:0.74
Consensus pattern (29 bp):
TTTCTTTCTCTTTTTTTTCCTTTTTCTAC
Found at i:4110639 original size:193 final size:192
Alignment explanation
Indices: 4110334--4110691 Score: 477
Period size: 193 Copynumber: 1.9 Consensus size: 192
4110324 GCTTATACTG
* * * * *
4110334 ATAGTGACATGATAAGGTGTCAAGATTTAATTGTAAAAACGTAAAAATAAAACAACTAAATCAAA
1 ATAGTGACATGACAAGGTATCAAGACTTAATAGTAAAAACGTAAAAATAAAACAACGAAATCAAA
* * * *
4110399 TTTGGATTTAATTTTTAAAAAGAGAGACTGGACAAGCTTAGTTCAATTCGTGAATACCTATAATA
66 CTTGGATTTAATTTTTAAAAAGAGAGACTGGACAAGCTCAATTCAATTCATGAATACCTATAATA
4110464 TCATGTTCATTGTCATAAAATCAAAAGG-TGAACTTAGTCTTCATTATTTAAAAGCTCATCTTT
131 TCATGTTCATTGTCATAAAAT-AAAAGGCT-AACTTAGTCTTCATTATTTAAAAGCTCATCTTT
* * * * * *
4110527 ATAGTGACGTGACAAGGTATCAAGACTTAATAGTAAGAATGT-AAAATAGACCAGCGAAATCAAA
1 ATAGTGACATGACAAGGTATCAAGACTTAATAGTAAAAACGTAAAAATAAAACAACGAAATCAAA
* * ** * *
4110591 CTTGGATTTGATTTTTTGAAAAGAGAGGTTGGACAAGCTCAATTCAATTCATGAATACTTCTAAT
66 CTTGGATTT-AATTTTTAAAAAGAGAGACTGGACAAGCTCAATTCAATTCATGAATACCTATAAT
*
4110656 ATCATTTTCATTGTCATAAAATAAAAGGCTAACTTA
130 ATCATGTTCATTGTCATAAAATAAAAGGCTAACTTA
4110692 CCATCTAAAT
Statistics
Matches: 141, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
192 38 0.27
193 103 0.73
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (192 bp):
ATAGTGACATGACAAGGTATCAAGACTTAATAGTAAAAACGTAAAAATAAAACAACGAAATCAAA
CTTGGATTTAATTTTTAAAAAGAGAGACTGGACAAGCTCAATTCAATTCATGAATACCTATAATA
TCATGTTCATTGTCATAAAATAAAAGGCTAACTTAGTCTTCATTATTTAAAAGCTCATCTTT
Found at i:4111029 original size:29 final size:29
Alignment explanation
Indices: 4110967--4111030 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
4110957 CTTATCGAAT
4110967 GTATAATTTTATAAACATTAATGATTATA
1 GTATAATTTTATAAACATTAATGATTATA
*
4110996 TTATAATTTTA-AAA-ATTACAATGATTGA-A
1 GTATAATTTTATAAACATT--AATGATT-ATA
4111025 GTATAA
1 GTATAA
4111031 ATTATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 3 0.10
28 3 0.10
29 23 0.77
30 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (29 bp):
GTATAATTTTATAAACATTAATGATTATA
Found at i:4138573 original size:14 final size:15
Alignment explanation
Indices: 4138554--4138585 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4138544 AAAAACCTAC
4138554 AAAAT-ATAATTAAA
1 AAAATAATAATTAAA
4138568 AAAATAATAATTAAA
1 AAAATAATAATTAAA
4138583 AAA
1 AAA
4138586 TTTGATGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAATAATTAAA
Found at i:4150329 original size:2 final size:2
Alignment explanation
Indices: 4150322--4150347 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4150312 ACATACATAC
4150322 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4150348 CCCACTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4164212 original size:16 final size:17
Alignment explanation
Indices: 4164188--4164220 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4164178 TTTATCATTA
4164188 AAAACTATAG-TTTATT
1 AAAACTATAGATTTATT
*
4164204 AAAATTATAGATTTATT
1 AAAACTATAGATTTATT
4164221 TATATATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
AAAACTATAGATTTATT
Found at i:4183765 original size:27 final size:29
Alignment explanation
Indices: 4183735--4183832 Score: 74
Period size: 32 Copynumber: 3.3 Consensus size: 29
4183725 AGGATTAAAG
* *
4183735 TGTAATAA-AAT-GTTTTTGAATATGGTA
1 TGTAATAACAATAGTTTTTCAACATGGTA
* * *
4183762 TGTAACAACAATATTTTTTCAACATGGTG
1 TGTAATAACAATAGTTTTTCAACATGGTA
* * **
4183791 TGTAATAACAGTATATTTTTTTTAACATGGCG
1 TGTAATAACA--ATA-GTTTTTCAACATGGTA
4183823 TGTAATAACA
1 TGTAATAACA
4183833 TTTTCTAACC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.12
28 3 0.05
29 21 0.36
31 3 0.05
32 24 0.41
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (29 bp):
TGTAATAACAATAGTTTTTCAACATGGTA
Found at i:4183788 original size:29 final size:31
Alignment explanation
Indices: 4183747--4183820 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
4183737 TAATAAAATG
* *
4183747 TTTTTGAATATGGTATGTAACAACA-ATA-T
1 TTTTTCAACATGGTATGTAACAACAGATATT
* *
4183776 TTTTTCAACATGGTGTGTAATAACAGTATATT
1 TTTTTCAACATGGTATGTAACAACAG-ATATT
*
4183808 TTTTTTAACATGG
1 TTTTTCAACATGG
4183821 CGTGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.57
31 3 0.08
32 13 0.35
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (31 bp):
TTTTTCAACATGGTATGTAACAACAGATATT
Found at i:4184008 original size:66 final size:66
Alignment explanation
Indices: 4183899--4184039 Score: 185
Period size: 66 Copynumber: 2.1 Consensus size: 66
4183889 TTTAATATGA
* * * * **
4183899 CGTGTAACAACTTAACCATGATTTGTAACATGTTTTTGTACATGGC-AAGTAACAATTTAACCAT
1 CGTGTAACAACCTAACCATGATATGTAACATGTTTTTGCACATGACGAA-TAACAACCTAACCAT
4183963 AG
65 AG
* * *
4183965 CGTGTAACAACCTAACCATGATATGTCACATGTTTTTGCACATGACGTATAACAACCTAACCATG
1 CGTGTAACAACCTAACCATGATATGTAACATGTTTTTGCACATGACGAATAACAACCTAACCATA
4184030 G
66 G
4184031 CGTGTAACA
1 CGTGTAACA
4184040 TGTTTTTGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (66 bp):
CGTGTAACAACCTAACCATGATATGTAACATGTTTTTGCACATGACGAATAACAACCTAACCATA
G
Found at i:4184063 original size:45 final size:45
Alignment explanation
Indices: 4183965--4184063 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
4183955 TTAACCATAG
* *
4183965 CGTGTAACAACCTAACCATGATATGTCACATGTTTTTGCACATGA
1 CGTGTAACAACCTAACCATGACATGTAACATGTTTTTGCACATGA
* * * * *
4184010 CGTATAACAACCTAACCATGGCGTGTAACATGTTTTTGTACATGG
1 CGTGTAACAACCTAACCATGACATGTAACATGTTTTTGCACATGA
*
4184055 TGTGTAACA
1 CGTGTAACA
4184064 TCATAGCGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
CGTGTAACAACCTAACCATGACATGTAACATGTTTTTGCACATGA
Found at i:4197982 original size:17 final size:18
Alignment explanation
Indices: 4197960--4197996 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4197950 ATTTTTTCTT
4197960 TTAAAGTGA-GAAGTTAA
1 TTAAAGTGATGAAGTTAA
*
4197977 TTAAAGTGATGAATTTAA
1 TTAAAGTGATGAAGTTAA
4197995 TT
1 TT
4197997 TGGAATTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (18 bp):
TTAAAGTGATGAAGTTAA
Found at i:4201677 original size:29 final size:29
Alignment explanation
Indices: 4201569--4201677 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 29
4201559 ATATGTGAAA
* * * **
4201569 AGGTACAAGAGAAGAAGTTGCACGTGAAC
1 AGGTACAAAAGAAGAAGATGTACAAGAAC
* * *
4201598 AAGTACAAAAGAAGAAGCTATACAAGAAC
1 AGGTACAAAAGAAGAAGATGTACAAGAAC
* * * *
4201627 AGGTACAAGAGAAGAATATGTACATGAAT
1 AGGTACAAAAGAAGAAGATGTACAAGAAC
* *
4201656 AGGTATAAAAGAAGAAGGTGTA
1 AGGTACAAAAGAAGAAGATGTA
4201678 TGAGAACTGG
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.50, C:0.09, G:0.26, T:0.16
Consensus pattern (29 bp):
AGGTACAAAAGAAGAAGATGTACAAGAAC
Found at i:4201684 original size:58 final size:58
Alignment explanation
Indices: 4201558--4201689 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 58
4201548 AGAAAAAAAG
* * *
4201558 TATATGTGAAAAGGTACAAGAGAAGAAGTTGCACGTGAACAAGTACAAAAGAAGAAGC
1 TATATGAGAACAGGTACAAGAGAAGAAGTTGCACATGAACAAGTACAAAAGAAGAAGC
** * * * * *
4201616 TATACAAGAACAGGTACAAGAGAAGAA-TATGTACATGAATAGGTATAAAAGAAGAAGG
1 TATATGAGAACAGGTACAAGAGAAGAAGT-TGCACATGAACAAGTACAAAAGAAGAAGC
* *
4201674 TGTATGAGAACTGGTA
1 TATATGAGAACAGGTA
4201690 TATAAGAATA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
57 1 0.02
58 58 0.98
ACGTcount: A:0.48, C:0.08, G:0.26, T:0.18
Consensus pattern (58 bp):
TATATGAGAACAGGTACAAGAGAAGAAGTTGCACATGAACAAGTACAAAAGAAGAAGC
Found at i:4201960 original size:35 final size:34
Alignment explanation
Indices: 4201921--4202007 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 34
4201911 TTTCACATTG
**
4201921 AGTAGTGTTCTACTTATTATAGTTGTTTTATCTGA
1 AGTAGTGTTC-ACTTATTATAGTTGTTTTAGATGA
* * * *
4201956 AGTAGTAATTCAATTCTTTTAGTTGTTTTAGATGA
1 AGTAGT-GTTCACTTATTATAGTTGTTTTAGATGA
4201991 AGTAGTGCTTCACTTAT
1 AGTAGTG-TTCACTTAT
4202008 AACAATTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
35 38 0.93
36 3 0.07
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.48
Consensus pattern (34 bp):
AGTAGTGTTCACTTATTATAGTTGTTTTAGATGA
Found at i:4224655 original size:2 final size:2
Alignment explanation
Indices: 4224648--4224677 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4224638 ATTTAGAAAT
4224648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4224678 AGTCCATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4225187 original size:11 final size:11
Alignment explanation
Indices: 4225166--4225194 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4225156 AACTGTTTTG
4225166 ATTAA-TAATA
1 ATTAATTAATA
4225176 ATTAATTAATA
1 ATTAATTAATA
4225187 ATTAATTA
1 ATTAATTA
4225195 TAAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAATTAATA
Found at i:4244483 original size:36 final size:36
Alignment explanation
Indices: 4244424--4244493 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
4244414 CTGGAAGGTT
*
4244424 GATATGATGATAAAATATGCATGACAAATTCTTGTA
1 GATATGATGATAAAATATACATGACAAATTCTTGTA
* * *
4244460 GATATGATGATGAGATATACATGATAAATTCTTG
1 GATATGATGATAAAATATACATGACAAATTCTTG
4244494 CGAAGCTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (36 bp):
GATATGATGATAAAATATACATGACAAATTCTTGTA
Found at i:4270674 original size:2 final size:2
Alignment explanation
Indices: 4270665--4270697 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4270655 CAAACAAAAA
4270665 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4270698 TCAAACCCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4278083 original size:2 final size:2
Alignment explanation
Indices: 4278076--4278110 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4278066 CAATCTTAGA
* *
4278076 AT AT AT AT AT AT AT AT AT AT AT AT GT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4278111 CTTTGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4278315 original size:37 final size:37
Alignment explanation
Indices: 4278255--4278329 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
4278245 AACGAACATT
* * *
4278255 TTGCTAAGGTTGAGGCTGTGTAAAGACGTGGACCTGA
1 TTGCAAAGGTTGAGGCTGCGTAAAGACGTAGACCTGA
*
4278292 TTGCAAAGGTTGAGGCTGCGTAAAGATGTAGACCTGA
1 TTGCAAAGGTTGAGGCTGCGTAAAGACGTAGACCTGA
4278329 T
1 T
4278330 CGTACCCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (37 bp):
TTGCAAAGGTTGAGGCTGCGTAAAGACGTAGACCTGA
Found at i:4291461 original size:11 final size:11
Alignment explanation
Indices: 4291421--4291484 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
4291411 TAATATCATA
4291421 TATTTTATTTT
1 TATTTTATTTT
*
4291432 TA-TTTATTAT
1 TATTTTATTTT
**
4291442 TATAATATTTT
1 TATTTTATTTT
4291453 TATTTTATTTT
1 TATTTTATTTT
* * *
4291464 TAATATATTTA
1 TATTTTATTTT
4291475 TATTTATATT
1 TATTT-TATT
4291485 ATTAATTTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
10 9 0.22
11 27 0.68
12 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:4291469 original size:63 final size:62
Alignment explanation
Indices: 4291402--4291583 Score: 162
Period size: 53 Copynumber: 3.1 Consensus size: 62
4291392 TCATTTCTTA
4291402 AATATATTTTAATATCATATATTTTATTTTTATTTATTATTATAATATTTTTATTTTATTTTT
1 AATATATTTTAATATCATATATTTTA-TTTTATTTATTATTATAATATTTTTATTTTATTTTT
* * **
4291465 AATATA-TTT-ATAT--T-TATATTA-TTAATTT-TTA-TATAATA-TCATATTTTA-----
1 AATATATTTTAATATCATATATTTTATTTTATTTATTATTATAATATTTTTATTTTATTTTT
* *
4291513 AAT-TATTTTTAATATCATATATTTTATTTTAATTATT-TTATAATTTTATTATATTTTATTTTT
1 AATATA-TTTTAATATCATATATTTTATTTTATTTATTATTATAATATT-TT-TATTTTATTTTT
4291576 AATATATT
1 AATATATT
4291584 ATTTTTTTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 36
0.66 0.07 0.26
Matches are distributed among these distances:
47 2 0.02
48 3 0.03
49 3 0.03
50 4 0.04
52 1 0.01
53 14 0.15
54 12 0.13
55 11 0.12
56 7 0.08
58 13 0.14
59 1 0.01
61 4 0.04
62 3 0.03
63 11 0.12
64 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (62 bp):
AATATATTTTAATATCATATATTTTATTTTATTTATTATTATAATATTTTTATTTTATTTTT
Found at i:4291498 original size:21 final size:21
Alignment explanation
Indices: 4291426--4291494 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
4291416 TCATATATTT
4291426 TATTTTTATTTATTATTA-TAA
1 TATTTTTATTTA-TATTATTAA
*
4291447 TATTTTTATTT-TATTTTTAA
1 TATTTTTATTTATATTATTAA
4291467 TATATTTATATTTATATTATTAA
1 TAT-TTT-TATTTATATTATTAA
4291490 T-TTTT
1 TATTTT
4291495 ATATAATATC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.10
20 6 0.14
21 17 0.40
22 6 0.14
23 9 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTTTATTTATATTATTAA
Found at i:4291554 original size:21 final size:20
Alignment explanation
Indices: 4291421--4291950 Score: 112
Period size: 20 Copynumber: 26.6 Consensus size: 20
4291411 TAATATCATA
4291421 TATTTT-AT-TTTTAT-TTAT
1 TATTTTAATATTTTATATT-T
*
4291439 TATTATAATATTTT-TATTT
1 TATTTTAATATTTTATATTT
4291458 TATTTTTAATATATTTATATTT
1 TA-TTTTAATAT-TTTATATTT
4291480 ATATTATTAAT-TTTTATA---
1 -TATT-TTAATATTTTATATTT
* * * * *
4291498 TAATATCATATTTTAAATTA
1 TATTTTAATATTTTATATTT
**
4291518 T-TTTTAATATCATATATTT
1 TATTTTAATATTTTATATTT
4291537 TATTTTAATTATTTTATAATTT
1 TATTTTAA-TATTTTAT-ATTT
4291559 TA--TT-ATATTTTAT-TTT
1 TATTTTAATATTTTATATTT
*
4291575 TA--AT-ATATTATT-T-TTT
1 TATTTTAATATT-TTATATTT
4291591 TATTATTAAT-TTTTATATATAT
1 TATT-TTAATATTTTATAT-T-T
*
4291613 CATTTCTTAA-A---TATATTT
1 TA-TT-TTAATATTTTATATTT
* * *
4291631 TAATGTCATATATTTTATTTTATT
1 T-ATTTTA-ATATTTTA-TAT-TT
4291655 TATTATATAATATTTTTATATTT
1 TATT-T-TAATA-TTTTATATTT
4291678 TATTTTTAATATATTTATATTT
1 TA-TTTTAATAT-TTTATATTT
*
4291700 ATATTTATTAAT-TTTTATA--A
1 -TA-TT-TTAATATTTTATATTT
* * * * *
4291720 TAATATCATATTTTA-AATA
1 TATTTTAATATTTTATATTT
**
4291739 TATTTTTAATATCATATATTT
1 TA-TTTTAATATTTTATATTT
4291760 TATTTT--TA-TTTATTATTAT
1 TATTTTAATATTTTA-TATT-T
*
4291779 AATTTTATATATTTTAT-TTT
1 TATTTTA-ATATTTTATATTT
* * * *
4291799 TATTTT-TTAATATATTTTT
1 TATTTTAATATTTTATATTT
* *
4291818 TATATTATATATTTTATTTTAATT
1 TATTTTA-ATATTTTA---TATTT
* * * *
4291842 TGTTTTACCTATATTATA-TA
1 TATTTTA-ATATTTTATATTT
* * *
4291862 AATGTTAATTTTTTATATTT
1 TATTTTAATATTTTATATTT
*
4291882 TA-TTT--TATTTAAT-TTT
1 TATTTTAATATTTTATATTT
*
4291898 TATTCTT-ATATTATATATATT
1 TATT-TTAATATTTTATAT-TT
4291919 TATTTTAATATTTT-TATTT
1 TATTTTAATATTTTATATTT
*
4291938 TAATTATAATATT
1 T-ATTTTAATATT
4291951 ATAAATATTT
Statistics
Matches: 375, Mismatches: 71, Indels: 130
0.65 0.12 0.23
Matches are distributed among these distances:
16 25 0.07
17 26 0.07
18 38 0.10
19 63 0.17
20 72 0.19
21 42 0.11
22 41 0.11
23 32 0.09
24 30 0.08
25 6 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (20 bp):
TATTTTAATATTTTATATTT
Found at i:4291588 original size:95 final size:101
Alignment explanation
Indices: 4291452--4291703 Score: 240
Period size: 109 Copynumber: 2.5 Consensus size: 101
4291442 TATAATATTT
* *
4291452 TTATTTTAT--TTTTAATATA-TTTATATTT-ATATTATTAATTTTTATAT-A-ATAT-CAT-A-
1 TTATTTTATAATTTTATTATATTTTATTTTTAATA-TATT-ATTTTTATATAATATATACATCAT
4291508 TT-TTAAAT-TATTTTTAATATCATATATTTTATTTTAA
64 TTCTTAAATATA-TTTTAATATCATATATTTTATTTTAA
4291545 TTATTTTATAATTTTATTATATTTTATTTTTAATATATTATTTTTTTATTATTAATTTTTATATA
1 TTATTTTATAATTTTATTATATTTTATTTTTAATATATTA--TTTTTA-TA-TAA----TATATA
* * *
4291610 TATCATTTCTTAAATATATTTTAATGTCATATATTTTATTTTAT
58 CATCATTTCTTAAATATATTTTAATATCATATATTTTATTTTAA
* *
4291654 TTATTATATAATATTT-TTATATTTTATTTTTAATATATTTATATTTATAT
1 TTATTTTATAAT-TTTATTATATTTTATTTTTAATATA-TTATTTTTATAT
4291704 TTATTAATTT
Statistics
Matches: 131, Mismatches: 7, Indels: 29
0.78 0.04 0.17
Matches are distributed among these distances:
93 9 0.07
95 10 0.08
96 12 0.09
97 9 0.07
98 2 0.02
99 1 0.01
100 1 0.01
105 4 0.03
106 3 0.02
107 3 0.02
108 7 0.05
109 62 0.47
110 8 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (101 bp):
TTATTTTATAATTTTATTATATTTTATTTTTAATATATTATTTTTATATAATATATACATCATTT
CTTAAATATATTTTAATATCATATATTTTATTTTAA
Found at i:4291651 original size:109 final size:113
Alignment explanation
Indices: 4291350--4291800 Score: 692
Period size: 111 Copynumber: 4.0 Consensus size: 113
4291340 TAAATATAAG
*
4291350 TTTAATATATTTATATTTTTTATTATTAATTTTTATATAATATCAT-TTCTTAAATATA-TTTTA
1 TTTAATATATTTATA-TTTATATTATTAATTTTTATATAATATCATATT-TTAAATATATTTTTA
*
4291413 ATATCATATATTTTATTTTTATTTATTATTATAATATTTT-TATTTTATT
64 ATATCATATATTTTATTTTTATTTATTATTATAATTTTTTATATTTTATT
4291462 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATTTTAAAT-TATTTTTAAT
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATTTTAAATATATTTTTAAT
*
4291526 ATCATATATTTTA-TTTTAATTATT-TTATAATTTTATTATATTTTATT
66 ATCATATATTTTATTTTTATTTATTATTATAATTTT-TTATATTTTATT
* *
4291573 TTTAATATA-TTATTTTTTTATTATTAATTTTTATAT-ATATCAT-TTCTTAAATATA-TTTTAA
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATT-TTAAATATATTTTTAA
*
4291634 TGTCATATATTTTA-TTTTATTTATTA-TATAATATTTTTATATTTTATT
65 TATCATATATTTTATTTTTATTTATTATTATAAT-TTTTTATATTTTATT
4291682 TTTAATATATTTATATTTATATTTATTAATTTTTATAATAATATCATATTTTAAATATATTTTTA
1 TTTAATATATTTATATTTATA-TTATTAATTTTTAT-ATAATATCATATTTTAAATATATTTTTA
*
4291747 ATATCATATATTTTATTTTTATTTATTATTATAATTTTATATATTTTATT
64 ATATCATATATTTTATTTTTATTTATTATTATAATTTTTTATATTTTATT
4291797 TTTA
1 TTTA
4291801 TTTTTTAATA
Statistics
Matches: 312, Mismatches: 11, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
108 2 0.01
109 78 0.25
110 53 0.17
111 87 0.28
112 19 0.06
113 16 0.05
114 21 0.07
115 30 0.10
116 6 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (113 bp):
TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATTTTAAATATATTTTTAAT
ATCATATATTTTATTTTTATTTATTATTATAATTTTTTATATTTTATT
Found at i:4291696 original size:6 final size:6
Alignment explanation
Indices: 4291639--4291707 Score: 51
Period size: 5 Copynumber: 12.5 Consensus size: 6
4291629 TTTAATGTCA
* * *
4291639 TATATT T-TATT T-TATT TAT-TA TATA-A TATTTT TATATT T-TATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
* *
4291682 TTTA-A TATATT TATATT TATATT TAT
1 TATATT TATATT TATATT TATATT TAT
4291708 TAATTTTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 26 0.51
6 25 0.49
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:4291725 original size:22 final size:23
Alignment explanation
Indices: 4291678--4291725 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
4291668 TTTTATATTT
* *
4291678 TATTTTTAATATATTTATATTTA
1 TATTTTTAATATATTTATAATAA
4291701 TATTTATTAAT-T-TTTATAATAA
1 TATTT-TTAATATATTTATAATAA
4291723 TAT
1 TAT
4291726 CATATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 6 0.27
24 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTTTAATATATTTATAATAA
Found at i:4291768 original size:6 final size:6
Alignment explanation
Indices: 4291757--4291805 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
4291747 ATATCATATA
* *
4291757 TTTTAT TTTTAT TTATTAT TATAAT TTTATAT ATTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTT
4291806 TAATATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 23 0.64
7 10 0.28
8 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:4291768 original size:61 final size:60
Alignment explanation
Indices: 4291339--4291813 Score: 295
Period size: 61 Copynumber: 8.3 Consensus size: 60
4291329 CCCCTAATTA
** * * *
4291339 TTAAATATAAGTTTAATATATTTATATTT-TTTATTATTAATTTTTAT-ATAATATCAT-TT
1 TTAAATATATTTTTAATATATATATATTTATAT-TTATTAATTATTATAATAATAT-ATATT
* *
4291398 CTTAAATATA-TTTTAATAT-CATATATTT-TATTT-TTATTTATTAT--T-ATA-ATATT
1 -TTAAATATATTTTTAATATATATATATTTATATTTATTAATTATTATAATAATATATATT
* * * * *
4291451 TTTATTTTATTTTTAATATATTTATATTTATA-TTATTAATTTTTAT-ATAATATCATATT
1 TTAAATATATTTTTAATATATATATATTTATATTTATTAATTATTATAATAATAT-ATATT
* * *
4291510 TTAAAT-TATTTTTAATAT-CATATATTT-TA-TT-TTAATTATT-TTATAAT-TTTATT
1 TTAAATATATTTTTAATATATATATATTTATATTTATTAATTATTATAATAATATATATT
* * * * * *
4291563 AT-ATTTTATTTTTAATATAT-TATTTTTTTA-TTATTAATTTTTAT-AT-ATATCAT-TT
1 TTAAATATATTTTTAATATATATATATTTATATTTATTAATTATTATAATAATAT-ATATT
*
4291618 CTTAAATATA-TTTTAATGTCATATAT-TTTAT-TTTA-T--TTATTAT-AT-A-ATAT-TT
1 -TTAAATATATTTTTAATAT-ATATATATTTATATTTATTAATTATTATAATAATATATATT
* * * *
4291670 TTATATTTTATTTTTAATATATTTATATTTATATTTATTAATTTTTATAATAATATCATATT
1 TTA-AATATATTTTTAATATATATATATTTATATTTATTAATTATTATAATAATAT-ATATT
* * **
4291732 TTAAATATATTTTTAATATCATATAT-TTTATTTTTATTTATTATTATAATTTTATATATT
1 TTAAATATATTTTTAATAT-ATATATATTTATATTTATTAATTATTATAATAATATATATT
** *
4291792 TTATTTTTATTTTTTAATATAT
1 TTAAATATA-TTTTTAATATAT
4291814 TTTTTATATT
Statistics
Matches: 332, Mismatches: 47, Indels: 72
0.74 0.10 0.16
Matches are distributed among these distances:
51 3 0.01
52 23 0.07
53 49 0.15
54 33 0.10
55 39 0.12
56 26 0.08
57 31 0.09
58 26 0.08
59 18 0.05
60 24 0.07
61 50 0.15
62 10 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (60 bp):
TTAAATATATTTTTAATATATATATATTTATATTTATTAATTATTATAATAATATATATT
Found at i:4291785 original size:39 final size:37
Alignment explanation
Indices: 4291735--4291842 Score: 116
Period size: 33 Copynumber: 2.9 Consensus size: 37
4291725 TCATATTTTA
4291735 AATATATTTTTAATATCATATATTTTATTTTTATTTATT
1 AATATATTTTT-ATAT-ATATATTTTATTTTTATTTATT
** *
4291774 -AT-TATAATT-T-TATATATTTTATTTTTATTTTTT
1 AATATATTTTTATATATATATTTTATTTTTATTTATT
*
4291807 AATATATTTTTTATATTATATATTTTATTTTAATTT
1 AATATA-TTTTTATA-TATATATTTTATTTTTATTT
4291843 GTTTTACCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
33 21 0.37
34 3 0.05
35 3 0.05
36 3 0.05
37 6 0.11
38 2 0.04
39 19 0.33
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (37 bp):
AATATATTTTTATATATATATTTTATTTTTATTTATT
Found at i:4291814 original size:12 final size:14
Alignment explanation
Indices: 4291355--4291834 Score: 129
Period size: 14 Copynumber: 34.2 Consensus size: 14
4291345 ATAAGTTTAA
4291355 TATATTTATATTTTT
1 TATA-TTATATTTTT
4291370 TATTATTA-ATTTTT
1 TA-TATTATATTTTT
* *
4291384 ATATAATATCATTTCT
1 -TATATTAT-ATTTTT
*
4291400 TA-AATATA-TTTT
1 TATATTATATTTTT
* * *
4291412 AATATCATATATTT
1 TATATTATATTTTT
* *
4291426 TAT-TTTTATTTAT
1 TATATTATATTTTT
*
4291439 TATTATAATA-TTTT
1 TA-TATTATATTTTT
4291453 TAT-TT-TATTTTT
1 TATATTATATTTTT
*
4291465 AATATATT-TA-TATT
1 --TATATTATATTTTT
4291479 TATATTATTAATTTTT
1 TATATTA-T-ATTTTT
* *
4291495 ATATAATATCATATTT
1 -TATATTAT-ATTTTT
*
4291511 TA-AAT-TATTTTT
1 TATATTATATTTTT
* * *
4291523 AATATCATATATTT
1 TATATTATATTTTT
*
4291537 TATTTTA-ATTATTT
1 TATATTATATT-TTT
*
4291551 TATA--AT-TTTAT
1 TATATTATATTTTT
*
4291562 TATATTTTATTTTT
1 TATATTATATTTTT
4291576 AATATATTAT-TTTTT
1 --TATATTATATTTTT
4291591 TATTATTA-A-TTTT
1 TA-TATTATATTTTT
*
4291604 TATATATATCATTTCT
1 TATAT-TAT-ATTTTT
*
4291620 TA-AATATA-TTTT
1 TATATTATATTTTT
* * * *
4291632 AATGTCATATATTT
1 TATATTATATTTTT
*
4291646 TAT-TT-TATTTAT
1 TATATTATATTTTT
*
4291658 TATATAATA-TTTT
1 TATATTATATTTTT
*
4291671 TATATTTTATTTTT
1 TATATTATATTTTT
4291685 AATATATTTATATTTATAT
1 --TATA-TTATATTT-T-T
4291704 T-TATTA-ATTTTT
1 TATATTATATTTTT
* *
4291716 ATAATAATATCATATTT
1 -T-ATATTAT-ATTTTT
*
4291733 TA-AATATATTTTT
1 TATATTATATTTTT
*
4291746 AATATCATATATTTTATT
1 TATAT--TATA-TTT-TT
*
4291764 TTTATT-TATTATTAT
1 TATATTATATT-TT-T
* * *
4291779 AATTTTATATATTT
1 TATATTATATTTTT
*
4291793 TAT-TTTTATTTTT
1 TATATTATATTTTT
4291806 TA-A-TATATTTTT
1 TATATTATATTTTT
*
4291818 TATATTATATATTT
1 TATATTATATTTTT
4291832 TAT
1 TAT
4291835 TTTAATTTGT
Statistics
Matches: 339, Mismatches: 68, Indels: 117
0.65 0.13 0.22
Matches are distributed among these distances:
11 8 0.02
12 50 0.15
13 64 0.19
14 102 0.30
15 43 0.13
16 43 0.13
17 22 0.06
18 6 0.02
19 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATTATATTTTT
Found at i:4291858 original size:83 final size:87
Alignment explanation
Indices: 4291770--4291927 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 87
4291760 TATTTTTATT
*
4291770 TATTAT-TATAATTTTATATATTTTAT-TTTTA-TTT-TTTAATATATT-TT-TTATATTATATA
1 TATTATATA-AATGTTA-ATATTTTATATTTTATTTTATTTAAT-TATTATTCTTATATTATATA
4291829 T-TTTATTTTAATTTGTTTTACCTA
63 TATTTATTTTAATTTGTTTTACCTA
* *
4291853 TATTATATAAATGTTAATTTTTTATATTTTATTTTATTTAATTTTTATTCTTATATTATATATAT
1 TATTATATAAATGTTAATATTTTATATTTTATTTTATTTAATTATTATTCTTATATTATATATAT
4291918 TTATTTTAAT
66 TTATTTTAAT
4291928 ATTTTTATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
82 8 0.12
83 17 0.26
84 8 0.12
85 8 0.12
86 13 0.20
87 11 0.17
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (87 bp):
TATTATATAAATGTTAATATTTTATATTTTATTTTATTTAATTATTATTCTTATATTATATATAT
TTATTTTAATTTGTTTTACCTA
Found at i:4291893 original size:24 final size:24
Alignment explanation
Indices: 4291790--4291898 Score: 69
Period size: 28 Copynumber: 4.1 Consensus size: 24
4291780 ATTTTATATA
4291790 TTTTAT-TTTTATTTT-TTAATATATT
1 TTTTATATTTTATTTTATT--TA-ATT
4291815 TTTTATATTATATATTTTATTTTAATTT
1 TTTTATATT-T-TATTTTA-TTTAA-TT
* **
4291843 GTTTTACCTATATTATATAAATGTTAATT
1 -TTTTA--TATTTTAT-TTTAT-TTAATT
4291872 TTTTATATTTTATTTTATTTAATT
1 TTTTATATTTTATTTTATTTAATT
4291896 TTT
1 TTT
4291899 ATTCTTATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
24 9 0.13
25 9 0.13
26 9 0.13
27 2 0.03
28 15 0.22
29 11 0.16
30 9 0.13
31 3 0.04
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTATATTTTATTTTATTTAATT
Found at i:4291934 original size:14 final size:14
Alignment explanation
Indices: 4291898--4291941 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4291888 ATTTAATTTT
* *
4291898 TATTCTTATATTATA
1 TATTTTTATTTTA-A
*
4291913 TATATTTATTTTAA
1 TATTTTTATTTTAA
4291927 TATTTTTATTTTAA
1 TATTTTTATTTTAA
4291941 T
1 T
4291942 TATAATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTTAA
Found at i:4291934 original size:51 final size:55
Alignment explanation
Indices: 4291812--4291939 Score: 142
Period size: 53 Copynumber: 2.4 Consensus size: 55
4291802 TTTTTAATAT
*
4291812 ATTTTTTATATTATATATTTTATTTTAATTTGTTTTACCTATATTATATAAATGTTA
1 ATTTTATATATT-T-TATTTTATTTTAATTTGTTTTACCTATATTATATAAATGTTA
* * *
4291869 ATTTTTTATATTTTATTTTA-TTTAATTT-TTATT-CTTATATTATATATAT-TT-
1 ATTTTATATATTTTATTTTATTTTAATTTGTT-TTACCTATATTATATAAATGTTA
4291920 ATTTTA-ATATTTTTATTTTA
1 ATTTTATATA-TTTTATTTTA
4291940 ATTATAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
50 3 0.05
51 15 0.23
52 2 0.03
53 16 0.24
54 10 0.15
55 7 0.11
56 1 0.02
57 12 0.18
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (55 bp):
ATTTTATATATTTTATTTTATTTTAATTTGTTTTACCTATATTATATAAATGTTA
Found at i:4291945 original size:29 final size:28
Alignment explanation
Indices: 4291426--4291963 Score: 110
Period size: 29 Copynumber: 18.3 Consensus size: 28
4291416 TCATATATTT
*
4291426 TATTTTTA-TTTATTATTATAATATTTT--
1 TATTTTTATTTTATTA-TAT-TTATTTTAA
*
4291453 TA-TTTTATTTTTAATATATTTATATTT-A
1 TATTTTTA-TTTTATTATATTTAT-TTTAA
* *
4291481 TATTATTAATTTTTATATAATATCATATTTTAAA
1 TATT-TTTA-TTTTAT-T-ATAT-TTATTTT-AA
* *
4291515 TTATTTTTAATATCA-TATATTTTATTTTAA
1 -TATTTTT-ATTTTATTATA-TTTATTTTAA
4291545 TTATTTTATAATTTTATTATATTTTATTTTTAA
1 -TATTTT-T-ATTTTATTATA-TTTA-TTTTAA
* * * *
4291578 TA-TATTATTTTTTTATTATTAATTTTTA
1 TATTTTTATTTTATTA-TATTTATTTTAA
* * * * *
4291606 TATATATCA-TTTCTTAAATATATTTTAA
1 TAT-TTTTATTTTATTATATTTATTTTAA
* * * *
4291634 TGTCATATATTTTATTTTATTTATTATATAA
1 TAT-TTTTATTTTATTATATTTATT-T-TAA
* * *
4291665 TATTTTTATATT-TTATTTTTAATATATTTA
1 TATTTTTATTTTATTATATTT-AT-T-TTAA
* *
4291695 TATTTATA-TTTATTA-ATTT-TTATAA
1 TATTTTTATTTTATTATATTTATTTTAA
** * *
4291720 TAATATCATATTTTAAATATATTT-TTAATATCA
1 T-AT-TTTTATTTT-ATTATATTTATT--T-TAA
*
4291753 TATATTTTATTTTTATT-TA-TTATTATAA
1 TAT-TTTTA-TTTTATTATATTTATTTTAA
* *
4291781 T-TTTATATATTTTATTTTTATTT-TTTAATA
1 TATTT-T-TATTTTA-TTATATTTATTTTA-A
*
4291811 TATTTTTTATATTA-TATATTTTATTTTAA
1 TA-TTTTTATTTTATTATA-TTTATTTTAA
* * * ** *
4291840 TTTGTTTTACCTATATTATATAAATGTTAA
1 TAT-TTTTA-TTTTATTATATTTATTTTAA
* *
4291870 TTTTTTATATTTTATTTTATTTAATTTT--
1 TATTTT-TATTTTATTATATTT-ATTTTAA
* *
4291898 TATTCTTATATTATATATATTTATTTTAA
1 TATTTTTATTTTAT-TATATTTATTTTAA
* *
4291927 TATTTTTATTTTAATTATA-ATATTATAAA
1 TATTTTTATTTT-ATTATATTTATT-TTAA
4291956 TATTTTTA
1 TATTTTTA
4291964 ATAAGGTAAT
Statistics
Matches: 377, Mismatches: 78, Indels: 110
0.67 0.14 0.19
Matches are distributed among these distances:
25 3 0.01
26 13 0.03
27 32 0.08
28 54 0.14
29 94 0.25
30 88 0.23
31 35 0.09
32 31 0.08
33 16 0.04
34 6 0.02
35 5 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (28 bp):
TATTTTTATTTTATTATATTTATTTTAA
Found at i:4296217 original size:21 final size:21
Alignment explanation
Indices: 4296193--4296232 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4296183 TATATTTTTA
*
4296193 TAATAATAATAATAATATAAT
1 TAATAATAATAAAAATATAAT
* *
4296214 TAATTATATTAAAAATATA
1 TAATAATAATAAAAATATA
4296233 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAATAATAAAAATATAAT
Found at i:4296571 original size:70 final size:70
Alignment explanation
Indices: 4296479--4296610 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 70
4296469 AATTCTCAAC
* * * *
4296479 TATTTCTTCTATTTCCAATCAACTAATAGTAATATGTATTTAACGATCTCCAATAACTATTTTTT
1 TATTTCTTCTATTTCCAATCAACTAACAGTAAGATGTATTTAACAAT-TCCAACAACTATTTTTT
4296544 CTTAGT
65 CTTAGT
* *
4296550 TATTTCTT-TATTTTCAATCAACTAACAGTAAGATGTATTTAACAATTCTAACAACTATTTT
1 TATTTCTTCTATTTCCAATCAACTAACAGTAAGATGTATTTAACAATTCCAACAACTATTTT
4296611 ATTTCCTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 13 0.24
70 34 0.62
71 8 0.15
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.45
Consensus pattern (70 bp):
TATTTCTTCTATTTCCAATCAACTAACAGTAAGATGTATTTAACAATTCCAACAACTATTTTTTC
TTAGT
Found at i:4305730 original size:18 final size:19
Alignment explanation
Indices: 4305692--4305730 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4305682 TCATATTTGC
* *
4305692 TTATATTTTTTGTATTTAT
1 TTATATTTTTTGCATTCAT
4305711 TTATATTTTTT-CATTCAT
1 TTATATTTTTTGCATTCAT
4305729 TT
1 TT
4305731 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (19 bp):
TTATATTTTTTGCATTCAT
Found at i:4305757 original size:21 final size:21
Alignment explanation
Indices: 4305692--4305758 Score: 57
Period size: 26 Copynumber: 3.0 Consensus size: 21
4305682 TCATATTTGC
* *
4305692 TTATATTTTTT-GTATTT-AT
1 TTATATTTTTTATTATTTAAA
4305711 TTATATTTTTTCATTCATTTTTTAAA
1 TTATATTTTTT-ATT-A---TTTAAA
4305737 TTATATTTTTTATTATTTAAA
1 TTATATTTTTTATTATTTAAA
4305758 T
1 T
4305759 ATTGAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
19 11 0.28
21 8 0.21
22 1 0.03
24 1 0.03
25 6 0.15
26 12 0.31
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (21 bp):
TTATATTTTTTATTATTTAAA
Found at i:4313382 original size:11 final size:11
Alignment explanation
Indices: 4313366--4313408 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
4313356 TTTCTTTCAA
4313366 TTTATATTATT
1 TTTATATTATT
*
4313377 TTTATATT-TA
1 TTTATATTATT
4313387 TTTAT-TTATT
1 TTTATATTATT
*
4313397 TTTATTTTATT
1 TTTATATTATT
4313408 T
1 T
4313409 ACTCATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 2 0.07
10 12 0.43
11 14 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATATTATT
Found at i:4313400 original size:14 final size:15
Alignment explanation
Indices: 4313377--4313409 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4313367 TTATATTATT
4313377 TTTATATTTA-TTTA
1 TTTATATTTATTTTA
*
4313391 TTTATTTTTATTTTA
1 TTTATATTTATTTTA
4313406 TTTA
1 TTTA
4313410 CTCATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATATTTATTTTA
Found at i:4316859 original size:2 final size:2
Alignment explanation
Indices: 4316852--4316887 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4316842 AATGGTATGA
4316852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4316888 GAATATCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4317487 original size:18 final size:17
Alignment explanation
Indices: 4317466--4317499 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4317456 TAAAAGGTAT
4317466 TTAATAAATAAATTTCTA
1 TTAAT-AATAAATTTCTA
*
4317484 TTAATCATAAATTTCT
1 TTAATAATAAATTTCT
4317500 TTATTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATAATAAATTTCTA
Found at i:4336531 original size:18 final size:18
Alignment explanation
Indices: 4336493--4336560 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
4336483 AATTTTCAAG
*
4336493 TTTTATTTTATTT-TGTT-
1 TTTTAATTTATTTAT-TTA
4336510 TTTTAATTTATATTA-TTA
1 TTTTAATTTAT-TTATTTA
*
4336528 TTTTTATTTATTTATTTA
1 TTTTAATTTATTTATTTA
*
4336546 TTTTTATTCTATTTA
1 TTTTAATT-TATTTA
4336561 CTCATGTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 15 0.34
18 23 0.52
19 6 0.14
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (18 bp):
TTTTAATTTATTTATTTA
Found at i:4344626 original size:2 final size:2
Alignment explanation
Indices: 4344614--4344655 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4344604 ATCTTTGTAC
*
4344614 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4344656 GCATACATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4351498 original size:16 final size:16
Alignment explanation
Indices: 4351474--4351510 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4351464 TGCTTTGCCT
* *
4351474 TTTTCTTTTTCATTCA
1 TTTTGTTTTTCATCCA
4351490 TTTTGTTTTTCATCCA
1 TTTTGTTTTTCATCCA
4351506 TTTTG
1 TTTTG
4351511 ACTCAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTTGTTTTTCATCCA
Found at i:4367456 original size:4 final size:4
Alignment explanation
Indices: 4367447--4367479 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
4367437 ACTAGCTAAT
4367447 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
4367480 CACACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:4371497 original size:40 final size:37
Alignment explanation
Indices: 4371438--4371633 Score: 108
Period size: 39 Copynumber: 4.9 Consensus size: 37
4371428 AAAAATATTT
* * *
4371438 TATAATATTATAATTAAAATAAAAATATTAAATATAAATA
1 TATAATATAAGAATAAAAATAAAAATA--AAATA-AAATA
*
4371478 TATAATATAAGAATAAAAATTAAAATAAAATAAAATA
1 TATAATATAAGAATAAAAATAAAAATAAAATAAAATA
* *
4371515 -ATAAAATTAATATTTATATAATATAGGTAAACAATTAAAATAAAATA
1 TATAATA-TAAGA---ATA-AA-A-A--TAAA-AA-TAAAATAAAATA
* * *
4371562 TATAATATAAAAATATATTAA-AGAAATGAAAATAAAATA
1 TATAATATAAGAATA-A-AAATAAAAAT-AAAATAAAATA
* * *
4371601 TATAAAATTATAATAATAAATAAAAATAAAATA
1 TATAATATAAGAATAA-AAATAAAAATAAAATA
4371634 TATGACATTA
Statistics
Matches: 125, Mismatches: 16, Indels: 32
0.72 0.09 0.18
Matches are distributed among these distances:
36 5 0.04
37 9 0.07
38 16 0.13
39 30 0.24
40 28 0.22
41 2 0.02
42 1 0.01
43 2 0.02
44 6 0.05
45 3 0.02
46 2 0.02
47 16 0.13
48 5 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (37 bp):
TATAATATAAGAATAAAAATAAAAATAAAATAAAATA
Found at i:4371627 original size:33 final size:33
Alignment explanation
Indices: 4371566--4371861 Score: 147
Period size: 33 Copynumber: 9.1 Consensus size: 33
4371556 AAAATATATA
* * *
4371566 ATATAAAAATATATTAAAGAAATGAAAATAAAAT
1 ATATAAAAATATAAT-AATAAATAAAAATAAAAT
*
4371600 ATATAAAATTATAATAATAAATAAAAATAAAAT
1 ATATAAAAATATAATAATAAATAAAAATAAAAT
* * * * * *
4371633 ATAT-GACAT-TAAAAATATATTTAAAATATGATATT
1 ATATAAAAATATAATAATA-A-ATAAAA-AT-AAAAT
*
4371668 ATATAAAAAT-TAATAAT--ATAAATAT-AAAT
1 ATATAAAAATATAATAATAAATAAAAATAAAAT
* **
4371697 ATATTAAAAATAAAAT-ATAAAT-ATTATAATAAT
1 ATA-TAAAAATATAATAATAAATAAAAATAA-AAT
* * *
4371730 AAATAAAAATAAAATACATGACATTAAAAAT---AT
1 ATATAAAAATATAATA-AT-A-AATAAAAATAAAAT
* * * * * *
4371763 ATTTAAGAA-ATGATATTATATAAAAAT-TAAT
1 ATATAAAAATATAATAATAAATAAAAATAAAAT
*
4371794 A-ATAAAAATAT-A-AATATATTAAAAATAAAAT
1 ATATAAAAATATAATAATA-AATAAAAATAAAAT
* *
4371825 ATATAAAATTATAATAATAAACAAAAATAAAAT
1 ATATAAAAATATAATAATAAATAAAAATAAAAT
4371858 ATAT
1 ATAT
4371862 GATATTAAAA
Statistics
Matches: 197, Mismatches: 41, Indels: 49
0.69 0.14 0.17
Matches are distributed among these distances:
29 15 0.08
30 23 0.12
31 26 0.13
32 35 0.18
33 55 0.28
34 21 0.11
35 8 0.04
36 11 0.06
37 3 0.02
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (33 bp):
ATATAAAAATATAATAATAAATAAAAATAAAAT
Found at i:4371693 original size:6 final size:6
Alignment explanation
Indices: 4371682--4371745 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
4371672 AAAAATTAAT
* *
4371682 AATATA AATATA AATAT- ATTAAA AATA-A AATATA AATATTA TAATAATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATA-TA -AAT-ATA
*
4371731 AATAAA AATA-A AATA
1 AATATA AATATA AATA
4371746 CATGACATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.27
6 25 0.51
7 5 0.10
8 5 0.10
9 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:4371714 original size:64 final size:63
Alignment explanation
Indices: 4371645--4371833 Score: 189
Period size: 59 Copynumber: 3.2 Consensus size: 63
4371635 ATGACATTAA
4371645 AAATATATTTAAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAAT
1 AAATATATTTAAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAAT
* *
4371708 AAA-ATA--T-AAATAT--TA-TA-ATAATAAA-TAA-AA-ATAAA-ATACATGACATT--AAA-
1 AAATATATTTAAAATATGATATTATATAA-AAATTAATAATATAAATATAAAT-ATATTAAAAAT
*
4371758 A-ATATATTTAAGAA-ATGATATTATATAAAAATTAATAATAAAAATATAAATATATTAAAAAT
1 AAATATATTTAA-AATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAAT
*
4371820 AAA-ATATATAAAAT
1 AAATATATTTAAAAT
4371834 TATAATAATA
Statistics
Matches: 100, Mismatches: 6, Indels: 41
0.68 0.04 0.28
Matches are distributed among these distances:
49 1 0.01
50 4 0.04
51 3 0.03
52 6 0.06
53 12 0.12
54 4 0.04
55 9 0.09
56 10 0.10
57 9 0.09
58 2 0.02
59 14 0.14
60 6 0.06
61 5 0.05
62 11 0.11
63 4 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (63 bp):
AAATATATTTAAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAAT
Found at i:4371734 original size:112 final size:112
Alignment explanation
Indices: 4371590--4372149 Score: 872
Period size: 112 Copynumber: 5.0 Consensus size: 112
4371580 TAAAGAAATG
*
4371590 AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
1 AAAATAAAATATA-AATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
4371655 AA-AATATGATATTATATAAAAATTAATAATATAAATATAAATATATTA
65 AAGAA-ATGATATTATATAAAAATTAATAATAAAAATATAAATATATTA
*
4371703 AAAATAAAATATAAATATTATAATAATAAATAAAAATAAAATACATGACATTAAAAATATATTTA
1 AAAATAAAATATAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTA
4371768 AGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATATTA
66 AGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATATTA
* * *
4371815 AAAATAAAATATATAAAATTATAATAATAAACAAAAATAAAATATATGATATT-AAAA-ATATTT
1 AAAATAAAATATA-AATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
4371878 AA-AATATGATATTATATAAAAAATTAATAATATAAATATAAATATATTA
65 AAGAA-ATGATATTATAT-AAAAATTAATAATAAAAATATAAATATATTA
*
4371927 AAAATAAAATATAAAATATTATAATAAGAAAT-AAAATAAAATA-ATGACATT-AAAATATATTT
1 AAAATAAAATAT-AAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
4371989 AAGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATATT-
65 AAGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATATTA
*
4372036 AAAATAAAATATAAAATATTAT-AT-ATAAATAAAAAATAAAATATATGATATTAAAAATATA-T
1 AAAATAAAATAT-AAATATTATAATAATAAAT-AAAAATAAAATATATGACATTAAAAATATATT
*
4372098 TAAGAAATGATATTATATAAAAATTAATAACAAAAAATATAAATATATTA
64 TAAGAAATGATATTATATAAAAATTAATAA-TAAAAATATAAATATATTA
4372148 AA
1 AA
4372150 CTTATATTTT
Statistics
Matches: 418, Mismatches: 16, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
107 5 0.01
108 2 0.00
109 33 0.08
110 80 0.19
111 76 0.18
112 171 0.41
113 51 0.12
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (112 bp):
AAAATAAAATATAAATATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTA
AGAAATGATATTATATAAAAATTAATAATAAAAATATAAATATATTA
Found at i:4371760 original size:27 final size:26
Alignment explanation
Indices: 4371602--4372094 Score: 144
Period size: 27 Copynumber: 17.9 Consensus size: 26
4371592 AATAAAATAT
4371602 ATAAAAT-TATA-A-TAATAAATAAAA
1 ATAAAATATATACATTAA-AAATAAAA
* *
4371626 ATAAAATATATGACATTAAAAATATAT
1 ATAAAATATAT-ACATTAAAAATAAAA
* *
4371653 TTAAAATATGATATTATATAAAAATTAATAA
1 ATAAAATAT-ATA-CAT-TAAAAA-TAA-AA
* *
4371684 TATAAATATAAATATATTAAAAAT-AAA
1 -ATAAA-ATATATACATTAAAAATAAAA
4371711 ATATAAATATTATA-A-TAATAAATAAAA
1 ATA-AAATA-TATACATTAA-AAATAAAA
* * *
4371738 ATAAAATACATGACATTAAAAATATAT
1 ATAAAATATAT-ACATTAAAAATAAAA
* * *
4371765 TTAAGAA-ATGATATTATATAAAAATTAATA
1 ATAA-AATAT-ATA-CAT-TAAAAA-TAAAA
*
4371795 ATAAAAATATAAATATATTAAAAATAAAA
1 AT-AAAATAT--ATACATTAAAAATAAAA
*
4371824 TATATAAA-ATTATA-A-TAATAAACAAAA
1 -ATA-AAATA-TATACATTAA-AAATAAAA
*
4371851 ATAAAATATATGATATTAAAAATATTTAAA
1 ATAAAATATAT-ACATTAAAAATA---AAA
** * *
4371881 ATATGATAT-TATATAAAAAATTAATAA
1 ATAAAATATATACATTAAAAA-TAA-AA
* *
4371908 TATAAATATAAATATATTAAAAATAAAA
1 -ATAAA-ATATATACATTAAAAATAAAA
4371936 TATAAAATATTATA-A-TAAGAAAT-AAA
1 -ATAAAATA-TATACATTAA-AAATAAAA
* *
4371962 ATAAAATA-ATGACATT-AAAATATAT
1 ATAAAATATAT-ACATTAAAAATAAAA
* * *
4371987 TTAAGAA-ATGATATTATATAAAAATTAATA
1 ATAA-AATAT-ATA-CAT-TAAAAA-TAAAA
*
4372017 ATAAAA-ATATAAATATATTAAAATAAAA
1 ATAAAATATATACAT-TA--AAAATAAAA
* *
4372045 TATAAAATAT-TATA-TATAAATAAAAA
1 -ATAAAATATATACATTAAAAAT-AAAA
*
4372071 ATAAAATATATGATATTAAAAATA
1 ATAAAATATAT-ACATTAAAAATA
4372095 TATTAAGAAA
Statistics
Matches: 362, Mismatches: 44, Indels: 123
0.68 0.08 0.23
Matches are distributed among these distances:
23 2 0.01
24 12 0.03
25 42 0.12
26 42 0.12
27 79 0.22
28 60 0.17
29 49 0.14
30 52 0.14
31 11 0.03
32 10 0.03
33 3 0.01
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAAAATATATACATTAAAAATAAAA
Found at i:4371828 original size:225 final size:222
Alignment explanation
Indices: 4371590--4372149 Score: 938
Period size: 225 Copynumber: 2.5 Consensus size: 222
4371580 TAAAGAAATG
*
4371590 AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
1 AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTT
4371655 AAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAATAAAATAT-AAAT
66 AAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAATAAAATATAAAAT
*
4371719 ATTATAATAATAAATAAAAATAAAATACATGACATTAAAAATATATTTAAGAAATGATATTATAT
131 ATTATAATAAGAAAT-AAAATAAAATA-ATGACATT-AAAATATATTTAAGAAATGATATTATAT
4371784 AAAAATTAATAATAAAAATATAAATATATT
193 AAAAATTAATAATAAAAATATAAATATATT
*
4371814 AAAAATAAAATATATAAAATTATAATAATAAACAAAAATAAAATATATGATATT-AAAA-ATATT
1 -AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATT
4371877 TAAAATATGATATTATATAAAAAATTAATAATATAAATATAAATATATTAAAAATAAAATATAAA
65 TAAAATATGATATTATAT-AAAAATTAATAATATAAATATAAATATATTAAAAATAAAATATAAA
4371942 ATATTATAATAAGAAATAAAATAAAATAATGACATTAAAATATATTTAAGAAATGATATTATATA
129 ATATTATAATAAGAAATAAAATAAAATAATGACATTAAAATATATTTAAGAAATGATATTATATA
4372007 AAAATTAATAATAAAAATATAAATATATT
194 AAAATTAATAATAAAAATATAAATATATT
4372036 AAAATAAAATATA-AAATATTAT-AT-ATAAATAAAAAATAAAATATATGATATTAAAAATATA-
1 AAAATAAAATATATAAA-ATTATAATAATAAAT-AAAAATAAAATATATGATATTAAAAATATAT
* *
4372097 TTAAGAA-ATGATATTATATAAAAATTAATAACAAAAAATATAAATATATTAAA
64 TTAA-AATATGATATTATATAAAAATTAATAA-TATAAATATAAATATATTAAA
4372150 CTTATATTTT
Statistics
Matches: 321, Mismatches: 6, Indels: 20
0.93 0.02 0.06
Matches are distributed among these distances:
219 5 0.02
220 38 0.12
221 57 0.18
222 63 0.20
223 31 0.10
224 58 0.18
225 69 0.21
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (222 bp):
AAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTT
AAAATATGATATTATATAAAAATTAATAATATAAATATAAATATATTAAAAATAAAATATAAAAT
ATTATAATAAGAAATAAAATAAAATAATGACATTAAAATATATTTAAGAAATGATATTATATAAA
AATTAATAATAAAAATATAAATATATT
Found at i:4371960 original size:20 final size:21
Alignment explanation
Indices: 4371668--4372073 Score: 155
Period size: 23 Copynumber: 18.5 Consensus size: 21
4371658 ATATGATATT
4371668 ATATAAAA-ATTAATAATATAA
1 ATATAAAATATTAATAATA-AA
*
4371689 ATATAAATATATTAAAAATAAA
1 ATATAAA-ATATTAATAATAAA
4371711 ATAT-AAATATT-ATAATAATA
1 ATATAAAATATTAATAATAA-A
* *
4371731 A-ATAAAA-ATAAAATACATGACA
1 ATATAAAATAT-TAATA-AT-AAA
* * * *
4371753 TTAAAAATATATTTAAGAAATGATA
1 ATATAAA-ATA-TTAA-TAAT-AAA
* *
4371778 TTATATAAAAATTAATAATAAAA
1 ATATA-AAATATTAATAAT-AAA
*
4371801 ATATAAATATATTAAAAATAAA
1 ATATAAA-ATATTAATAATAAA
4371823 ATATATAAA-ATTATAATAATAAACAA
1 ATATA-AAATA-T-TAATAAT--A-AA
* * *
4371849 AAATAAAATATATGATATTAAA
1 ATATAAAATAT-TAATAATAAA
* *
4371871 AATATTTAAAATA-TGAT-AT--T
1 -ATA--TAAAATATTAATAATAAA
*
4371891 ATATAAAAAATTAATAATATAA
1 ATATAAAATATTAATAATA-AA
*
4371913 ATATAAATATATTAAAAATAAA
1 ATATAAA-ATATTAATAATAAA
4371935 ATATAAAATATT-ATAATAAGA
1 ATATAAAATATTAATAATAA-A
* * *
4371956 A-ATAAAATA-AAATAATGAC
1 ATATAAAATATTAATAATAAA
* *
4371975 AT-TAAAATATATTTAAGAAATGATATT
1 ATAT-AAA-ATA-TTAA-TAAT-A-A-A
4372002 ATATAAAA-ATTAATAATAAAA
1 ATATAAAATATTAATAAT-AAA
4372023 ATATAAATATATTAA-AATAAA
1 ATATAAA-ATATTAATAATAAA
4372044 ATATAAAATATT-AT-ATATAA
1 ATATAAAATATTAATAATA-AA
*
4372064 ATAAAAAATA
1 ATATAAAATA
4372074 AAATATATGA
Statistics
Matches: 297, Mismatches: 41, Indels: 95
0.69 0.09 0.22
Matches are distributed among these distances:
17 6 0.02
18 3 0.01
19 21 0.07
20 49 0.16
21 40 0.13
22 46 0.15
23 68 0.23
24 12 0.04
25 33 0.11
26 13 0.04
27 5 0.02
28 1 0.00
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (21 bp):
ATATAAAATATTAATAATAAA
Found at i:4372041 original size:25 final size:24
Alignment explanation
Indices: 4371901--4372096 Score: 90
Period size: 21 Copynumber: 8.7 Consensus size: 24
4371891 ATATAAAAAA
*
4371901 TTAATAATATAAATATAAATATA-
1 TTAATAATAAAAATATAAATATAT
*
4371924 TTAAAAAT-AAAATATAAA-ATA-
1 TTAATAATAAAAATATAAATATAT
4371945 TT-ATAATAAGAAATA-AAATA-A-
1 TTAATAATAA-AAATATAAATATAT
* * *
4371966 --AATAATGACATTA-AAATATAT
1 TTAATAATAAAAATATAAATATAT
* **
4371987 TTAAGAAATGATATTATATAAA-A-A-
1 TTAA-TAAT-A-AAAATATAAATATAT
4372011 TTAATAATAAAAATATAAATATA-
1 TTAATAATAAAAATATAAATATAT
4372034 TTAA-AAT-AAAATATAAA-ATAT
1 TTAATAATAAAAATATAAATATAT
4372055 TATATATAAATAAAAA-ATAAA-ATAT
1 T-TA-AT-AATAAAAATATAAATATAT
* * *
4372080 ATGATATTAAAAATATA
1 TTAATAATAAAAATATA
4372097 TTAAGAAATG
Statistics
Matches: 135, Mismatches: 17, Indels: 42
0.70 0.09 0.22
Matches are distributed among these distances:
19 8 0.06
20 14 0.10
21 29 0.21
22 29 0.21
23 23 0.17
24 8 0.06
25 13 0.10
26 8 0.06
27 3 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (24 bp):
TTAATAATAAAAATATAAATATAT
Found at i:4372079 original size:20 final size:20
Alignment explanation
Indices: 4372042--4372081 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4372032 TATTAAAATA
* **
4372042 AAATATAAAATATTATATAT
1 AAATAAAAAATAAAATATAT
4372062 AAATAAAAAATAAAATATAT
1 AAATAAAAAATAAAATATAT
4372082 GATATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAAAATAAAATATAT
Found at i:4372099 original size:11 final size:13
Alignment explanation
Indices: 4372080--4372112 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
4372070 AATAAAATAT
4372080 ATGATATTAA-AA
1 ATGATATTAAGAA
4372092 AT-ATATTAAGAA
1 ATGATATTAAGAA
4372104 ATGATATTA
1 ATGATATTA
4372113 TATAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.37
12 6 0.32
13 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (13 bp):
ATGATATTAAGAA
Found at i:4372137 original size:27 final size:27
Alignment explanation
Indices: 4371663--4372137 Score: 167
Period size: 27 Copynumber: 17.1 Consensus size: 27
4371653 TTAAAATATG
*
4371663 ATATTATATAAAAATTAATAATATAAAT
1 ATATTATATAAAAATTAATAATA-AAAA
* *
4371691 ATAAATATATTAAAAA-TAA-AAT-ATAA
1 AT-ATTATA-TAAAAATTAATAATAAAAA
* *
4371717 ATATTATAATAATAAA-TAAAAATAAAAT
1 ATATTAT-ATAA-AAATTAATAATAAAAA
* * * * * **
4371745 ACATGACATTAAAAATATATTTAAGAAATG
1 ATATTATA-TAAAAAT-TA-ATAATAAAAA
4371775 ATATTATATAAAAATTAATAATAAAAA
1 ATATTATATAAAAATTAATAATAAAAA
* *
4371802 TATAAATATATTAAAAA-TAA-AATATATAA
1 -AT-ATTATA-TAAAAATTAATAATA-AAAA
* * *
4371831 A-ATTATAATAATAAA-CAAAAATAAAAT
1 ATATTAT-ATAA-AAATTAATAATAAAAA
* *
4371858 ATATGATATTAAAAA-T-AT-TTAAAATA
1 ATATTATA-TAAAAATTAATAATAAAA-A
*
4371884 TGATATTATATAAAAAATTAATAATATAAAT
1 --ATATTATAT-AAAAATTAATAATA-AAAA
* *
4371915 ATAAATATATTAAAAA-TAA-AATATAAA
1 AT-ATTATA-TAAAAATTAATAATAAAAA
*
4371942 ATATTATAATAAGAAA-TAA-AATAAAAT
1 ATATTAT-ATAA-AAATTAATAATAAAAA
* * * * * **
4371969 A-ATGACATTAAAATATATTTAAGAAATG
1 ATATTATATAAAAAT-TA-ATAATAAAAA
4371997 ATATTATATAAAAATTAATAATAAAAA
1 ATATTATATAAAAATTAATAATAAAAA
* * *
4372024 TATAAATATATTAAAA-TAA-AATATAAA
1 -AT-ATTATATAAAAATTAATAATAAAAA
* * * *
4372051 ATATTATATATAAATAAAAAATAAAAT
1 ATATTATATAAAAATTAATAATAAAAA
* * * **
4372078 ATATGATATTAAAAATATATTAAGAAATG
1 ATATTATA-TAAAAAT-TAATAATAAAAA
*
4372107 ATATTATATAAAAATTAATAACAAAAA
1 ATATTATATAAAAATTAATAATAAAAA
4372134 ATAT
1 ATAT
4372138 AAATATATTA
Statistics
Matches: 328, Mismatches: 77, Indels: 85
0.67 0.16 0.17
Matches are distributed among these distances:
24 3 0.01
25 24 0.07
26 35 0.11
27 83 0.25
28 76 0.23
29 67 0.20
30 34 0.10
31 3 0.01
32 3 0.01
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (27 bp):
ATATTATATAAAAATTAATAATAAAAA
Found at i:4372319 original size:15 final size:15
Alignment explanation
Indices: 4372294--4372338 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
4372284 TGTTATTTTC
*
4372294 CCTGTAATCACATTG
1 CCTGCAATCACATTG
* *
4372309 CTTGCAATCACATTA
1 CCTGCAATCACATTG
4372324 CCTGCAATCACATTG
1 CCTGCAATCACATTG
4372339 TATTGTAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (15 bp):
CCTGCAATCACATTG
Found at i:4372878 original size:28 final size:28
Alignment explanation
Indices: 4372847--4373154 Score: 96
Period size: 27 Copynumber: 11.2 Consensus size: 28
4372837 GATGTGTAAT
** *
4372847 AATTTTTTATTATAATGTATAATAACTA
1 AATTTTTTAACATAATGTATAACAACTA
* *
4372875 AATTTTTTAACATAATGTGTAACAATTA
1 AATTTTTTAACATAATGTATAACAACTA
* * *
4372903 AA-TTTTCAACATGGCATGTAT--CAATTA
1 AATTTTTTAACAT--AATGTATAACAACTA
* * * ** ** * *
4372930 TATATTTCAACATAGCGTGCAAGAATTA
1 AATTTTTTAACATAATGTATAACAACTA
* * *
4372958 AA-TTTTCAACATGATGTGTAACAACTA
1 AATTTTTTAACATAATGTATAACAACTA
* * * *
4372985 TATTTTTCAACATGATGTATAACAATTA
1 AATTTTTTAACATAATGTATAACAACTA
* * *
4373013 AA-TTTTTAATATGGCATG--TAGCAACTA
1 AATTTTTTAACAT--AATGTATAACAACTA
* * * * * *
4373040 TA-TTTTCAACATAGTATGTAATAACTA
1 AATTTTTTAACATAATGTATAACAACTA
* * * * *
4373067 AA-TCTTCAACATGACGTGTAACAACTA
1 AATTTTTTAACATAATGTATAACAACTA
* *
4373094 AA-TTTTCAACATAATATATAACAACTA
1 AATTTTTTAACATAATGTATAACAACTA
* * ** * *
4373121 CATTTTTCAACATGGTGTATAATAATTA
1 AATTTTTTAACATAATGTATAACAACTA
4373149 AATTTT
1 AATTTT
4373155 CAACATGACG
Statistics
Matches: 209, Mismatches: 60, Indels: 22
0.72 0.21 0.08
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 109 0.52
28 89 0.43
29 8 0.04
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.39
Consensus pattern (28 bp):
AATTTTTTAACATAATGTATAACAACTA
Found at i:4372922 original size:27 final size:27
Alignment explanation
Indices: 4372892--4373248 Score: 195
Period size: 27 Copynumber: 13.1 Consensus size: 27
4372882 TAACATAATG
4372892 TGTAACAATTAAATTTTCAACATGGCA
1 TGTAACAATTAAATTTTCAACATGGCA
* * * *
4372919 TGTATCAATTATATATTTCAACATAGCG
1 TGTAACAATTAAAT-TTTCAACATGGCA
* * ***
4372947 TGCAAGAATTAAATTTTCAACATGATG
1 TGTAACAATTAAATTTTCAACATGGCA
* *
4372974 TGTAACAACTATATTTTTCAACAT-G-A
1 TGTAACAATTA-AATTTTCAACATGGCA
* *
4373000 TGTATAACAATTAAATTTTTAATATGGCA
1 TG--TAACAATTAAATTTTCAACATGGCA
* * * * *
4373029 TGTAGCAACTATATTTTCAACATAGTA
1 TGTAACAATTAAATTTTCAACATGGCA
* * * * *
4373056 TGTAATAACTAAATCTTCAACATGACG
1 TGTAACAATTAAATTTTCAACATGGCA
* ***
4373083 TGTAACAACTAAATTTTCAACATAATA
1 TGTAACAATTAAATTTTCAACATGGCA
* * * **
4373110 TATAACAACTACATTTTTCAACATGGTG
1 TGTAACAATTA-AATTTTCAACATGGCA
* * * *
4373138 TATAATAATTAAATTTTCAACATGACG
1 TGTAACAATTAAATTTTCAACATGGCA
* * *
4373165 TGTAATAATTACATTTTCAATAT-G-A
1 TGTAACAATTAAATTTTCAACATGGCA
* ** *
4373190 TGCGTAACAATT--ATTTCCAACATAACG
1 T--GTAACAATTAAATTTTCAACATGGCA
* *
4373217 TGTAACAATTAAATTTTAGAACATGGTA
1 TGTAACAATTAAATTTT-CAACATGGCA
4373245 TGTA
1 TGTA
4373249 GTATTACATT
Statistics
Matches: 249, Mismatches: 67, Indels: 27
0.73 0.20 0.08
Matches are distributed among these distances:
25 19 0.08
26 2 0.01
27 154 0.62
28 71 0.29
29 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTAACAATTAAATTTTCAACATGGCA
Found at i:4372957 original size:55 final size:54
Alignment explanation
Indices: 4372878--4373233 Score: 252
Period size: 55 Copynumber: 6.6 Consensus size: 54
4372868 ATAACTAAAT
* * * * *
4372878 TTTTTAACATAATGTGTAACAATTAAATTTTCAACATGGCATGTATCAATTATA
1 TTTTCAACATAGTGTGTAACAATTAAATTTTCAACATGACATGTAACAACTATA
* * * **
4372932 TATTTCAACATAGCGTGCAAGAATTAAATTTTCAACATGATGTGTAACAACTATA
1 T-TTTCAACATAGTGTGTAACAATTAAATTTTCAACATGACATGTAACAACTATA
* * * * *
4372987 TTTTTCAACAT-GATGTATAACAATTAAATTTTTAATATGGCATGTAGCAACTATA
1 -TTTTCAACATAG-TGTGTAACAATTAAATTTTCAACATGACATGTAACAACTATA
* * * * * *
4373042 TTTTCAACATAGTATGTAATAACTAAATCTTCAACATGACGTGTAACAACTAAA
1 TTTTCAACATAGTGTGTAACAATTAAATTTTCAACATGACATGTAACAACTATA
* * * * * *** * * * *
4373096 TTTTCAACATAATATATAACAACTACATTTTTCAACATGGTGTATAATAATTAAA
1 TTTTCAACATAGTGTGTAACAATTA-AATTTTCAACATGACATGTAACAACTATA
* * * * ***
4373151 TTTTCAACAT-GACGTGTAATAATTACATTTTCAATATGATGCGTAACAA-T-TA
1 TTTTCAACATAG-TGTGTAACAATTAAATTTTCAACATGACATGTAACAACTATA
* **
4373203 TTTCCAACATAACGTGTAACAATTAAATTTT
1 TTTTCAACATAGTGTGTAACAATTAAATTTT
4373234 AGAACATGGT
Statistics
Matches: 236, Mismatches: 59, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
52 27 0.11
53 1 0.00
54 82 0.35
55 125 0.53
56 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (54 bp):
TTTTCAACATAGTGTGTAACAATTAAATTTTCAACATGACATGTAACAACTATA
Found at i:4373045 original size:82 final size:81
Alignment explanation
Indices: 4372864--4373189 Score: 251
Period size: 82 Copynumber: 4.0 Consensus size: 81
4372854 TATTATAATG
* * * * * * * * *
4372864 TATAATAACTAAATTTTTTAACATAATGTGTAACAATTAAATTTTCAACATGGCATGTATCAATT
1 TATAACAACTACA-TTTTCAACATGATGTGTAATAACTAAATTTTCAACATGACGTGTAACAATT
* * *
4372929 ATATATTTCAACAT-AGCG
65 AAAT-TTTCAATATGA-CA
** * * * * * * *
4372947 TGCAAGAATTAAATTTTCAACATGATGTGTAACAACTATATTTTTCAACATGATGTATAACAATT
1 TATAACAACTACATTTTCAACATGATGTGTAATAACTA-AATTTTCAACATGACGTGTAACAATT
* *
4373012 AAATTTTTAATATGGCA
65 AAATTTTCAATATGACA
* * * * * *
4373029 TGTAGCAACTATATTTTCAACAT-AGTATGTAATAACTAAATCTTCAACATGACGTGTAACAACT
1 TATAACAACTACATTTTCAACATGA-TGTGTAATAACTAAATTTTCAACATGACGTGTAACAATT
* * *
4373093 AAATTTTCAACATAATA
65 AAATTTTCAATATGACA
* * * *
4373110 TATAACAACTACATTTTTCAACATGGTGTATAATAATTAAATTTTCAACATGACGTGTAATAATT
1 TATAACAACTACA-TTTTCAACATGATGTGTAATAACTAAATTTTCAACATGACGTGTAACAATT
*
4373175 ACATTTTCAATATGA
65 AAATTTTCAATATGA
4373190 TGCGTAACAA
Statistics
Matches: 190, Mismatches: 48, Indels: 11
0.76 0.19 0.04
Matches are distributed among these distances:
81 44 0.23
82 114 0.60
83 32 0.17
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (81 bp):
TATAACAACTACATTTTCAACATGATGTGTAATAACTAAATTTTCAACATGACGTGTAACAATTA
AATTTTCAATATGACA
Found at i:4373969 original size:2 final size:2
Alignment explanation
Indices: 4373962--4373994 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4373952 GTCAAAAGTG
*
4373962 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4373995 GTTCACTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4381924 original size:35 final size:35
Alignment explanation
Indices: 4381885--4381954 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
4381875 TCTCTCGAGT
4381885 TTTCAAAATAGCAAAGAATTAGGAAACAAAAGAGA
1 TTTCAAAATAGCAAAGAATTAGGAAACAAAAGAGA
*
4381920 TTTCAAAATAGCAAAGAATTAGGAAACAGAAGAGA
1 TTTCAAAATAGCAAAGAATTAGGAAACAAAAGAGA
4381955 GAATCTCGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.56, C:0.09, G:0.19, T:0.17
Consensus pattern (35 bp):
TTTCAAAATAGCAAAGAATTAGGAAACAAAAGAGA
Done.