Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 65 of 311
Found at i:19798327 original size:19 final size:19
Alignment explanation
Indices: 19798303--19798339 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
19798293 TTTGAGCTTA
19798303 GTTTTTTAATGATTTCTAG
1 GTTTTTTAATGATTTCTAG
19798322 GTTTTTTAATGATTTCTA
1 GTTTTTTAATGATTTCTA
19798340 TATTTTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
GTTTTTTAATGATTTCTAG
Found at i:19798345 original size:19 final size:19
Alignment explanation
Indices: 19798304--19798346 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
19798294 TTGAGCTTAG
*
19798304 TTTTTTAATGATTTCTAGG
1 TTTTTTAATGATTTCTAGA
*
19798323 TTTTTTAATGATTTCTATA
1 TTTTTTAATGATTTCTAGA
19798342 TTTTT
1 TTTTT
19798347 GTGATCGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTTTTAATGATTTCTAGA
Found at i:19802909 original size:38 final size:38
Alignment explanation
Indices: 19802858--19803165 Score: 499
Period size: 38 Copynumber: 8.1 Consensus size: 38
19802848 TATTCGATGG
19802858 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19802896 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
19802934 ATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19802972 ATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
19803010 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19803048 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
19803086 ATATTCGGGTTAAATCCCACAGGCTTCGTCCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
19803124 ATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
19803162 ATAT
1 ATAT
19803166 TCAGGCCTTC
Statistics
Matches: 249, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 249 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:19803240 original size:43 final size:43
Alignment explanation
Indices: 19803163--19803244 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
19803153 GCTGGTATTA
* **
19803163 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
*
19803206 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
19803245 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:19808680 original size:38 final size:38
Alignment explanation
Indices: 19808629--19808903 Score: 451
Period size: 38 Copynumber: 7.2 Consensus size: 38
19808619 TATTCGATGG
19808629 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
19808667 ATATCCGGGTTAAATCCCGTAGGCTTCATGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
19808705 ATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
19808743 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19808781 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19808819 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
19808857 ATATTCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19808895 ATATTCGGG
1 ATATCCGGG
19808904 CCTTCGTGCC
Statistics
Matches: 222, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 222 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:19808973 original size:43 final size:43
Alignment explanation
Indices: 19808896--19808977 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
19808886 GCTGGTATTA
* **
19808896 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
19808939 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
19808978 AATGATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:19814410 original size:38 final size:38
Alignment explanation
Indices: 19814359--19814633 Score: 424
Period size: 38 Copynumber: 7.2 Consensus size: 38
19814349 TATTCGATGG
19814359 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
19814397 ATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
19814435 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCAGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
19814473 ATATCCGGGTTAAATCTCGCAAGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19814511 ATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19814549 ATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * **
19814587 ATATCCGGGATAAATCCCGCAGGCCTAATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
19814625 ATATTCGGG
1 ATATCCGGG
19814634 CCTTCGTGCC
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 220 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:19814703 original size:43 final size:42
Alignment explanation
Indices: 19814605--19814707 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 42
19814595 GATAAATCCC
*
19814605 GCAGGCCTAATGCTGGT-ATTATATTCGGGCCTTCGTGCCTA
1 GCAGGCCTAATGCCGGTGATTATATTCGGGCCTTCGTGCCTA
* ** *
19814646 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCCTAATGCCGGTGAT-TATATTCGGGCCTTCGTGCCTA
*
19814689 GCAGGCGTAATGCCGGTGA
1 GCAGGCCTAATGCCGGTGA
19814708 AATGATATGT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.25
42 2 0.04
43 37 0.71
ACGTcount: A:0.15, C:0.24, G:0.33, T:0.28
Consensus pattern (42 bp):
GCAGGCCTAATGCCGGTGATTATATTCGGGCCTTCGTGCCTA
Found at i:19818384 original size:3 final size:3
Alignment explanation
Indices: 19818378--19818427 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
19818368 CTATATTTGA
19818378 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19818426 AA
1 AA
19818428 ACCTATTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19844742 original size:23 final size:23
Alignment explanation
Indices: 19844715--19844760 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19844705 ATGCAATATT
19844715 AGATAAGA-TATGTAAATCTTAGA
1 AGATAAGATTATGT-AATCTTAGA
* *
19844738 AGATATGATTTTGTAATCTTAGA
1 AGATAAGATTATGTAATCTTAGA
19844761 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (23 bp):
AGATAAGATTATGTAATCTTAGA
Found at i:19844773 original size:21 final size:23
Alignment explanation
Indices: 19844729--19844774 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
19844719 AAGATATGTA
*
19844729 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
19844752 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
19844773 AA
1 AA
19844775 ATATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:19847010 original size:496 final size:496
Alignment explanation
Indices: 19846058--19847055 Score: 1400
Period size: 496 Copynumber: 2.0 Consensus size: 496
19846048 GCCTCCTTGG
* * *
19846058 GATGACATTGGTTTGACTCATCTTAGAACCTTCTCAATGCCTCAACTGATTCCTTACTAGCATCT
1 GATGACACTGGTTTGACTCATCTCAAAACCTTCTCAATGCCTCAACTGATTCCTTACTAGCATCT
* * *
19846123 TTTTCAGGTAGTCCTACCCCTCGGAACACTTTCCTCGACTTCTTTTCTCTCCTAACTCGAACCAT
66 TTTTCAGGTAGTCATACCCCTCGGAACACTTGCCTCGACTTCTGTTCTCTCCTAACTCGAACCAT
* * * * *
19846188 TCCTCTCCTTAGTACATCTCGTATGCAAGAGCTCTGCTCATACTTACCTACATTGTGACTTTCCT
131 TCCTCTCCTTAGTACATCTCGTATGCAAGAGCCCTACTCATACTTACATACATTGTAACTTTCCC
** * * *
19846253 TGGTTGTCCCCTTGATCCTTACAACTAGGCTTATGCATGCTCACAATAAACATTGGGTTAAACTT
196 TAATTGTCCCCTTGATCCTCACAACAAGGCTTAGGCATGCTCACAATAAACATTGGGTTAAACTT
* * * *
19846318 GCTTTTTCCTGCCAACTCCAATTTGTAAGCCCCTTAGCTTACCCATTTTAGAACTTCAAAAGGGC
261 GATTTTTCCCGCCAACTCCAATTTGTAAGCCCCTTAGCTTACCCATTTCAGAACTTCAAAAGAGC
* *
19846383 CCCCATGTCTTTGCTAAACCAATAGTAAGTCATAATGAAAAACACTAGTTAAGTGTTTGAGATGT
326 CCCCATGTCTTTGCTAAACCAATAGTAAGTCATAATGAAAAACACTAGTTAAATATTTGAGATGT
* *
19846448 ACCTCGCATGTTGCATTTACTCGCTTTAACTTCCCAATTTGCATAACTACCTTAACCTTCAAAGT
391 ACCTCGCAAGTTGCATTTACTCGCTTTAACTTCCCAATTTGCATAACTACCTTAACCTCCAAAGT
* * *
19846513 TTGATGCACAACCCACGTCTCTCATAGGTGGTAACCCCACT
456 TTGATGCACAACCCACCTCTCTCATAAGTGGTAACCCAACT
* * * *
19846554 GATGACACTGGTTTGACTCATCTCAAAACCTTCTTAATGCCT-AGATTGATTCCTTGCTAGCCTC
1 GATGACACTGGTTTGACTCATCTCAAAACCTTCTCAATGCCTCA-ACTGATTCCTTACTAGCATC
*
19846618 TTTTTTAGGTAGTCATACCCCTCGGAACACTTGCCTCGACTT-TCGTTCTCTCCTAACTCGAACC
65 TTTTTCAGGTAGTCATACCCCTCGGAACACTTGCCTCGACTTCT-GTTCTCTCCTAACTCGAACC
* * * *
19846682 ATTCCTCTCCTTAGTACATCTCGT-TCGTAAGATCCCTACTCTTACTTGCATACATTGTAACTTT
129 ATTCCTCTCCTTAGTACATCTCGTAT-GCAAGAGCCCTACTCATACTTACATACATTGTAACTTT
*
19846746 CCCTAATTGGGATCCCCTTGATCCTCACAACAAGGCTTAGGCATGCTCACAATGAACATTGGGTT
193 CCCTAATT--G-TCCCCTTGATCCTCACAACAAGGCTTAGGCATGCTCACAATAAACATTGGGTT
* ** * *
19846811 AACCTTGATTTTTCCCGTGAACTTCAATTTGTAA-CCCCTTGGCTTACCCATTTCAGAAC-TCTA
255 AAACTTGATTTTTCCCGCCAACTCCAATTTGTAAGCCCCTTAGCTTACCCATTTCAGAACTTC-A
** * * *
19846874 AAAGAG-CCCTGTGTCTTTGTTAAGCCAATGGTAAGTCATAATGAAAAACACTAGTTAAATATTT
319 AAAGAGCCCCCATGTCTTTGCTAAACCAATAGTAAGTCATAATGAAAAACACTAGTTAAATATTT
* *
19846938 GAGATGTACCTCGCAAGTTGTATTTACTCGCTTTGACTTCCCAATTTGCATAACTACCTT-ACC-
384 GAGATGTACCTCGCAAGTTGCATTTACTCGCTTTAACTTCCCAATTTGCATAACTACCTTAACCT
* * *
19847001 CCAAAAGTTTGATGCACAACCTACCTCTCTCATAAGTGGTAGCCCAATT
449 CC-AAAGTTTGATGCACAACCCACCTCTCTCATAAGTGGTAACCCAACT
19847050 GATGAC
1 GATGAC
19847056 TCAATAGACT
Statistics
Matches: 442, Mismatches: 52, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
495 4 0.01
496 221 0.50
497 110 0.25
498 30 0.07
499 77 0.17
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (496 bp):
GATGACACTGGTTTGACTCATCTCAAAACCTTCTCAATGCCTCAACTGATTCCTTACTAGCATCT
TTTTCAGGTAGTCATACCCCTCGGAACACTTGCCTCGACTTCTGTTCTCTCCTAACTCGAACCAT
TCCTCTCCTTAGTACATCTCGTATGCAAGAGCCCTACTCATACTTACATACATTGTAACTTTCCC
TAATTGTCCCCTTGATCCTCACAACAAGGCTTAGGCATGCTCACAATAAACATTGGGTTAAACTT
GATTTTTCCCGCCAACTCCAATTTGTAAGCCCCTTAGCTTACCCATTTCAGAACTTCAAAAGAGC
CCCCATGTCTTTGCTAAACCAATAGTAAGTCATAATGAAAAACACTAGTTAAATATTTGAGATGT
ACCTCGCAAGTTGCATTTACTCGCTTTAACTTCCCAATTTGCATAACTACCTTAACCTCCAAAGT
TTGATGCACAACCCACCTCTCTCATAAGTGGTAACCCAACT
Found at i:19856605 original size:64 final size:64
Alignment explanation
Indices: 19856500--19856706 Score: 195
Period size: 67 Copynumber: 3.1 Consensus size: 64
19856490 CATCATGTGT
* **
19856500 ACAAGAAAGCTACGAGACATTATAATGTAGCTAGGTCGCATGGGTAATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
19856565 TAG
62 TAG
* * * * * * *
19856568 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
19856633 AG
63 AG
* * *
19856635 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
19856697 TACAAGAGAG
1 -ACAAGAGAG
19856707 TCGAACTATA
Statistics
Matches: 114, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 24 0.21
65 2 0.02
66 22 0.19
67 31 0.27
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:19857040 original size:28 final size:27
Alignment explanation
Indices: 19857004--19857156 Score: 123
Period size: 28 Copynumber: 5.6 Consensus size: 27
19856994 AAACGAATGG
* *
19857004 CACTTAGTGTGCGAAGTATTGAGGATGG
1 CACTTAGTGTGCGAAGTATCGA-GATGA
* *
19857032 CACTTAGTGTGC-AAGACATCCGAAATGA
1 CACTTAGTGTGCGAAG-TAT-CGAGATGA
** *
19857060 CAC--AGTGTATGAAGTATTGATGATGA
1 CACTTAGTGTGCGAAGTATCGA-GATGA
** * *
19857086 CACTTAGTGTGCGAAACATCCGAAATTA
1 CACTTAGTGTGCGAAGTAT-CGAGATGA
*
19857114 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAGTATCGA-GATGA
19857142 CACTTAGTGTGCGAA
1 CACTTAGTGTGCGAA
19857157 ACATCCGGTA
Statistics
Matches: 96, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 9 0.09
28 67 0.70
29 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (27 bp):
CACTTAGTGTGCGAAGTATCGAGATGA
Found at i:19857172 original size:28 final size:28
Alignment explanation
Indices: 19857086--19857189 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 28
19857076 TTGATGATGA
*
19857086 CACTTAGTGTGCGAAACATCCGAAATTA-
1 CACTTAGTGTGCGAAACATCCGGAA-TAG
** * *
19857114 CACTTAGTGTGCGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCG-GAATAG
*
19857142 CACTTAGTGTGCGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGGAATAG
*
19857170 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
19857190 GATTGTGCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
27 5 0.08
28 55 0.89
29 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGGAATAG
Found at i:19857174 original size:56 final size:56
Alignment explanation
Indices: 19857003--19857181 Score: 224
Period size: 56 Copynumber: 3.2 Consensus size: 56
19856993 CAAACGAATG
19857003 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT-
1 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAATA
** * *
19857058 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAATTA
1 G-CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAA-TA
* **
19857114 -CACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGGTATA
1 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATA
*
19857169 GCACTTAGCGTGC
1 GCACTTAGTGTGC
19857182 AAGACATCGA
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
54 44 0.42
55 6 0.06
56 55 0.52
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (56 bp):
GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATA
Found at i:19861170 original size:96 final size:96
Alignment explanation
Indices: 19861034--19861210 Score: 275
Period size: 96 Copynumber: 1.8 Consensus size: 96
19861024 CGGCGGTGTC
* *
19861034 TCTACCCGTGTGTTTATTACCATGCATACTGACTTGAAATTTTT-CTGTGCAGAGGACACACGGT
1 TCTACCCGTGTGGTTACTACCATGCATACTGACTTGAAATTTTTAC-GTGCAGAGGACACACGGT
* *
19861098 CGGACAACATGCCCATGACACATGCCCTTGTG
65 CAGACAACACGCCCATGACACATGCCCTTGTG
* * *
19861130 TCTACCCGTGTGGTTACTACCATGCATACTGACTTTAAATTTTTACGTGTAGGGGACACACGGTC
1 TCTACCCGTGTGGTTACTACCATGCATACTGACTTGAAATTTTTACGTGCAGAGGACACACGGTC
19861195 AGACAACACGCCCATG
66 AGACAACACGCCCATG
19861211 GGGCTAGTGG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (96 bp):
TCTACCCGTGTGGTTACTACCATGCATACTGACTTGAAATTTTTACGTGCAGAGGACACACGGTC
AGACAACACGCCCATGACACATGCCCTTGTG
Found at i:19868332 original size:6 final size:6
Alignment explanation
Indices: 19868321--19868349 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19868311 TTAAAACTAC
19868321 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
19868350 TAGCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:19870036 original size:93 final size:93
Alignment explanation
Indices: 19869924--19870094 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
19869914 GCCCATAAGT
* *
19869924 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19869989 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
19870017 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
19870082 CGAGTTCGGATGC
66 CGAGCTCGGATGC
19870095 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:19870091 original size:46 final size:46
Alignment explanation
Indices: 19869916--19870091 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
19869906 TGTAACCCGC
* *
19869916 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19869962 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
19870008 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19870055 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
19870092 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:19872515 original size:30 final size:30
Alignment explanation
Indices: 19872471--19872559 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
19872461 CAAAGATAAC
19872471 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
19872500 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
19872530 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
19872560 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:19872519 original size:15 final size:15
Alignment explanation
Indices: 19872471--19872550 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
19872461 CAAAGATAAC
*
19872471 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
19872485 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
19872500 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
19872515 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
19872530 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
19872545 AAGAAA
1 AAGAAA
19872551 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:19872559 original size:15 final size:15
Alignment explanation
Indices: 19872482--19872559 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
19872472 AGAAAACCGA
19872482 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
19872497 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
19872511 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
19872526 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
19872542 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
19872557 ATA
1 ATA
19872560 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:19875583 original size:93 final size:93
Alignment explanation
Indices: 19875471--19875641 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
19875461 GCCCATAAGT
* *
19875471 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19875536 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
19875564 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
19875629 CGAGTTCGGATGC
66 CGAGCTCGGATGC
19875642 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:19875638 original size:46 final size:46
Alignment explanation
Indices: 19875463--19875638 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
19875453 TGTAACCCGC
* *
19875463 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19875509 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
19875555 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19875602 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
19875639 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:19895662 original size:31 final size:30
Alignment explanation
Indices: 19895627--19895684 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
19895617 ATAGACCACA
*
19895627 TTTTGGCAAAATGACCATTTTTCCCCTAGGC
1 TTTT-GCAAAATGACCATTTTACCCCTAGGC
* * *
19895658 TTTTGTAAAATTACGATTTTACCCCTA
1 TTTTGCAAAATGACCATTTTACCCCTA
19895685 TGTTAGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTTGCAAAATGACCATTTTACCCCTAGGC
Found at i:19904617 original size:16 final size:17
Alignment explanation
Indices: 19904598--19904629 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19904588 TTTAATTTTA
19904598 TTCAATTATTT-AATTC
1 TTCAATTATTTGAATTC
19904614 TTCAATTATTTGAATT
1 TTCAATTATTTGAATT
19904630 ATTAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
TTCAATTATTTGAATTC
Found at i:19917853 original size:15 final size:16
Alignment explanation
Indices: 19917832--19917874 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
19917822 TTCTATAGTC
19917832 TTCTATAGTTTCACAA
1 TTCTATAGTTTCACAA
*
19917848 -TCTATAGTTTTTACAA
1 TTCTATAG-TTTCACAA
19917864 TTCTATAGTTT
1 TTCTATAGTTT
19917875 TCAAAGTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 10 0.42
17 7 0.29
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (16 bp):
TTCTATAGTTTCACAA
Found at i:19917870 original size:17 final size:17
Alignment explanation
Indices: 19917832--19917877 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
19917822 TTCTATAGTC
19917832 TTCTATAG-TTTCACAA
1 TTCTATAGTTTTCACAA
*
19917848 -TCTATAGTTTTTACAA
1 TTCTATAGTTTTCACAA
19917864 TTCTATAGTTTTCA
1 TTCTATAGTTTTCA
19917878 AAGTCTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (17 bp):
TTCTATAGTTTTCACAA
Found at i:19921371 original size:16 final size:16
Alignment explanation
Indices: 19921346--19921377 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19921336 ATGTGATCCA
19921346 AAAATCATATTTTTGC
1 AAAATCATATTTTTGC
*
19921362 AAAATTATATTTTTGC
1 AAAATCATATTTTTGC
19921378 CCCTAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
AAAATCATATTTTTGC
Found at i:19922833 original size:20 final size:19
Alignment explanation
Indices: 19922788--19922833 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
19922778 ATACTCACAA
19922788 ATTA-ATTAAATAAATAAC
1 ATTATATTAAATAAATAAC
* *
19922806 ATTTTATTAAAGTAAATAAT
1 ATTATATTAAA-TAAATAAC
19922826 ATTATATT
1 ATTATATT
19922834 TCAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 3 0.13
19 6 0.26
20 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTATATTAAATAAATAAC
Found at i:19924572 original size:21 final size:21
Alignment explanation
Indices: 19924546--19924592 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
19924536 ATCTCCCGCA
19924546 GTTGCTCCCTAATTGTACCTT
1 GTTGCTCCCTAATTGTACCTT
19924567 GTTGCTCCCTAATTGTACCTT
1 GTTGCTCCCTAATTGTACCTT
19924588 GTTGC
1 GTTGC
19924593 ATAAACCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.43
Consensus pattern (21 bp):
GTTGCTCCCTAATTGTACCTT
Found at i:19930734 original size:40 final size:40
Alignment explanation
Indices: 19930503--19930727 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
19930493 TTGAATGATG
* * * *
19930503 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
19930543 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19930583 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19930622 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19930662 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
19930703 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19930728 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19930749 original size:119 final size:119
Alignment explanation
Indices: 19930503--19930760 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
19930493 TTGAATGATG
* *
19930503 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
19930568 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
19930622 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
19930685 TTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
19930742 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19930761 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:19938630 original size:40 final size:40
Alignment explanation
Indices: 19938500--19938684 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
19938490 TTGAATGATG
* * * *
19938500 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
19938540 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19938579 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19938619 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19938660 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19938685 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 86 0.67
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19938636 original size:79 final size:81
Alignment explanation
Indices: 19938500--19938684 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
19938490 TTGAATGATG
*
19938500 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19938564 TGTGCGAG-TACTA-A
66 TGTGCGAGTTACTATA
* * * **
19938578 TTCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
19938641 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
19938659 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19938685 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 56 0.60
80 36 0.38
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:19938715 original size:79 final size:79
Alignment explanation
Indices: 19938552--19938717 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 79
19938542 CGGACTAAGA
* **
19938552 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTA
*
19938617 AATCCGGGTTAAGT
66 AATCCGGGTTAAAT
* *
19938631 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-
*
19938694 CTATATCC-GGTTAAAT
63 CTAAATCCGGGTTAAAT
19938710 TCCGAAGG
1 TCCGAAGG
19938718 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
79 37 0.49
80 39 0.51
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGGTTAAAT
Found at i:19938715 original size:119 final size:119
Alignment explanation
Indices: 19938500--19938717 Score: 264
Period size: 119 Copynumber: 1.8 Consensus size: 119
19938490 TTGAATGATG
*
19938500 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
** *
19938565 GTGCGAGTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAACGAGTACTAATTCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * * *
19938619 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
19938682 TTGAACGAGTAGCT-ATATCC-GGTTAAATTCCGAAGG
64 TTGAACGAGTA-CTAAT-TCCGGGCTAAATCCCGAAGG
19938718 TACGTGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
118 1 0.01
119 70 0.84
120 12 0.14
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTACTAATTCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19940417 original size:48 final size:48
Alignment explanation
Indices: 19940342--19940439 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
19940332 AGTGGATTCA
* * * *
19940342 ATGGAAATAAGTAGTAGAAGTACACGTGCTGAGGCCTAATGCTGTAGC
1 ATGGAAACAAGTAGTAGAAATACACGTGCTGAGGCCCAATGCCGTAGC
*
19940390 ATGGAAACAAGTAGTAGAAATATACGTGCTGAGGCCCAATGCCGTAGC
1 ATGGAAACAAGTAGTAGAAATACACGTGCTGAGGCCCAATGCCGTAGC
19940438 AT
1 AT
19940440 CGGCCCAACG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (48 bp):
ATGGAAACAAGTAGTAGAAATACACGTGCTGAGGCCCAATGCCGTAGC
Found at i:19946624 original size:31 final size:31
Alignment explanation
Indices: 19946557--19946625 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
19946547 TTGGTTATTA
* *
19946557 AATTATTCAAAAATTTTCTTTTAAGTCACTG
1 AATTATTCAAAAATTTTCATTTAAGTAACTG
* *
19946588 AATTATTCAAAAGTTTGT-ATTTAAGTAATTG
1 AATTATTCAAAAATTT-TCATTTAAGTAACTG
*
19946619 GATTATT
1 AATTATT
19946626 AAGTTTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (31 bp):
AATTATTCAAAAATTTTCATTTAAGTAACTG
Found at i:19946965 original size:44 final size:44
Alignment explanation
Indices: 19946916--19947001 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
19946906 AGTAAATTAA
*
19946916 ATAAATTTTTAAATAATTTAATAATTGAATTGTAATTTTTTTTG
1 ATAAATTTTTAAATAATTTAATAATTGAATTGTAAATTTTTTTG
19946960 ATAAATTTTTAAATAATTTAATAATTGAATTGTAAATTTTTT
1 ATAAATTTTTAAATAATTTAATAATTGAATTGTAAATTTTTT
19947002 AAACTAATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (44 bp):
ATAAATTTTTAAATAATTTAATAATTGAATTGTAAATTTTTTTG
Found at i:19949796 original size:21 final size:21
Alignment explanation
Indices: 19949755--19949796 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19949745 GACCCATGCA
*
19949755 TGTTTGTAATTTACTTGGTAG
1 TGTTTGTAATTTACTTCGTAG
*
19949776 TGTTTGTAATTTAGTTCGTAG
1 TGTTTGTAATTTACTTCGTAG
19949797 CCATGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.52
Consensus pattern (21 bp):
TGTTTGTAATTTACTTCGTAG
Found at i:19949874 original size:138 final size:138
Alignment explanation
Indices: 19949626--19949894 Score: 493
Period size: 138 Copynumber: 1.9 Consensus size: 138
19949616 CACTGCTTCT
*
19949626 TTTACTTAGTAGTGTTTGTGATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
1 TTTACTTAGTAGTGTTTGTAATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
19949691 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
66 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
19949756 GTTTGTAA
131 GTTTGTAA
* * *
19949764 TTTACTTGGTAGTGTTTGTAATTTAGTTCGTAGCCATGATTTTCTTGGATGACTAGTTTTGGAGC
1 TTTACTTAGTAGTGTTTGTAATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
*
19949829 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGGTAATTGGTTTGAGGGAGGACCCATGCAT
66 TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
19949894 G
131 G
19949895 ATTATAATGA
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 126 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.43
Consensus pattern (138 bp):
TTTACTTAGTAGTGTTTGTAATTTAATTCGTAGCCATGATTTTCTTGGATGACTAGTGTTGGAGC
TTTTCAAGCATAACTATTTCATAGTTTCTTATTTTGCTAATTGGTTTGAGGGAGGACCCATGCAT
GTTTGTAA
Found at i:19952663 original size:31 final size:31
Alignment explanation
Indices: 19952625--19952688 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
19952615 CTCGTCACAC
19952625 GTTATGTTCATTTACAACCGTACATTTAGGA
1 GTTATGTTCATTTACAACCGTACATTTAGGA
19952656 GTTATGTTCATTTACAACCGTACATTTAGGA
1 GTTATGTTCATTTACAACCGTACATTTAGGA
19952687 GT
1 GT
19952689 GAGCAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (31 bp):
GTTATGTTCATTTACAACCGTACATTTAGGA
Found at i:19962662 original size:18 final size:18
Alignment explanation
Indices: 19962628--19962977 Score: 185
Period size: 18 Copynumber: 19.1 Consensus size: 18
19962618 TCATTAACAA
* *
19962628 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
19962645 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
19962663 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* *
19962681 TCAATAATAA-CAAATTAT
1 TCAGTAACAATC-AATTAT
*
19962699 TCAGTATCAATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
19962723 ATCCAGTAACAGTCAATTAT
1 -T-CAGTAACAATCAATTAT
*
19962743 TTAGTAA-AATC-ATATAT
1 TCAGTAACAATCAAT-TAT
* * *
19962760 TCAATAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
19962779 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
19962797 TTAGTAA-AATC-ATATAT
1 TCAGTAACAATCAAT-TAT
* * *
19962814 TCAATAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* * *
19962833 TCAGTAACAGTTATTTAT
1 TCAGTAACAATCAATTAT
* *
19962851 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
19962869 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
19962887 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
19962905 TCAGTAACAGTCTATTA-
1 TCAGTAACAATCAATTAT
19962922 TCTAGTAACAGA-CAATTAT
1 TC-AGTAACA-ATCAATTAT
* * *
19962941 TCGGTAATAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
19962959 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
19962977 T
1 T
19962978 TTATACCTTT
Statistics
Matches: 251, Mismatches: 59, Indels: 45
0.71 0.17 0.13
Matches are distributed among these distances:
16 4 0.02
17 27 0.11
18 169 0.67
19 32 0.13
20 3 0.01
24 1 0.00
25 2 0.01
26 13 0.05
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:19962784 original size:80 final size:80
Alignment explanation
Indices: 19962641--19962794 Score: 177
Period size: 80 Copynumber: 1.9 Consensus size: 80
19962631 GAACAATTAT
* * * * * *
19962641 TTATTCAGTAACAGTCACTTATTCGGTAACAATCAATTATTCAATAATAACAAATTATTCAGTAT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAATTATTCAATAACAACAAATTATCCAGTAA
19962706 CAATCAATTGATCGG
66 CAATCAATTGATCGG
* * * *
19962721 TTATCCAGTAACAGTCAATTATTTAGTAA-AATC-ATATATTCAATAGCAATTAAGTTATCCAGT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAAT-TATTCAATAACAA-CAAATTATCCAGT
*
19962784 AACAGTCAATT
64 AACAATCAATT
19962795 ATTTAGTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
78 2 0.03
79 15 0.25
80 44 0.72
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (80 bp):
TTATCCAGTAACAGTCAATTATTCAGTAACAATCAATTATTCAATAACAACAAATTATCCAGTAA
CAATCAATTGATCGG
Found at i:19962851 original size:54 final size:54
Alignment explanation
Indices: 19962720--19962843 Score: 239
Period size: 54 Copynumber: 2.3 Consensus size: 54
19962710 CAATTGATCG
19962720 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
1 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
19962774 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
1 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
*
19962828 GTTATTCAGTAACAGT
1 GTTATCCAGTAACAGT
19962844 TATTTATTCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (54 bp):
GTTATCCAGTAACAGTCAATTATTTAGTAAAATCATATATTCAATAGCAATTAA
Found at i:19962903 original size:72 final size:72
Alignment explanation
Indices: 19962721--19962977 Score: 208
Period size: 72 Copynumber: 3.6 Consensus size: 72
19962711 AATTGATCGG
* * * * * * *
19962721 TTATCCAGTAACAGTCAATTATTTAGTAA-AATCA-TATATTCAATAGCAAT-TAAGTTATCCAG
1 TTATTCAGTAATAGTCAATTATTCAGTAATAATCAGT-TATTCAGTAACAGTCT-A-TTATCTAG
*
19962783 TAACAGTCAA
63 TAACAGACAA
* * * ** *
19962793 TTATTTAGTAA-AATC-ATATATTCAATAGCAATTAAGTTATTCAGTAACAGT-TATTTAT-TCA
1 TTATTCAGTAATAGTCAAT-TATTCAGTAATAA-TCAGTTATTCAGTAACAGTCTA-TTATCT-A
* *
19962854 GTGACA-ATCAG
62 GTAACAGA-CAA
*
19962865 TTATTCAGTAAT-GATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTCTATTATCTAGTA
1 TTATTCAGTAATAG-TCAATTATTCAGTAATAATCAGTTATTCAGTAACAGTCTATTATCTAGTA
19962929 ACAGACAA
65 ACAGACAA
*
19962937 TTATTCGGTAATAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAATAGTCAATTATTCAGTAATAATCAGTTATT
19962978 TTATACCTTT
Statistics
Matches: 146, Mismatches: 26, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
70 2 0.01
71 10 0.07
72 101 0.69
73 30 0.21
74 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.38
Consensus pattern (72 bp):
TTATTCAGTAATAGTCAATTATTCAGTAATAATCAGTTATTCAGTAACAGTCTATTATCTAGTAA
CAGACAA
Found at i:19963202 original size:45 final size:45
Alignment explanation
Indices: 19963146--19963245 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
19963136 TCCAGAACAG
* *
19963146 TAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* *
19963191 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
19963236 TAACAGTAAC
1 TAACAGTAAC
19963246 GGTAGTCGGC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:19963240 original size:39 final size:41
Alignment explanation
Indices: 19963150--19963271 Score: 115
Period size: 45 Copynumber: 3.0 Consensus size: 41
19963140 GAACAGTAAC
* * *
19963150 AGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCGATA
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG--A
19963193 ACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG-
1 A--GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
* * * * *
19963235 A-TAACAGTAACGGTAGTCGGCACA-TAAGTGCCTAATC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
19963272 AGTAAGCCGG
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
38 11 0.16
39 20 0.29
42 1 0.01
43 1 0.01
45 36 0.52
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (41 bp):
AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
Found at i:19964995 original size:5 final size:5
Alignment explanation
Indices: 19964985--19965027 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
19964975 TTACTTATTT
19964985 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA AT
19965028 TTCTTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:19965151 original size:21 final size:22
Alignment explanation
Indices: 19965115--19965172 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
19965105 CATACAATTG
19965115 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTATAATATCA
*
19965137 TTAATATAA-ATTATAATAT-A
1 TTAAAATAATATTATAATATCA
* *
19965157 ATAAAATAATAATATA
1 TTAAAATAATATTATA
19965173 GTCTTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 8 0.26
21 15 0.48
22 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATAATATTATAATATCA
Found at i:19965168 original size:16 final size:17
Alignment explanation
Indices: 19965138--19965172 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19965128 ATAATATCAT
*
19965138 TAATATAAATTATAATA
1 TAATATAAATAATAATA
19965155 TAATA-AAATAATAATA
1 TAATATAAATAATAATA
19965171 TA
1 TA
19965173 GTCTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATATAAATAATAATA
Found at i:19967475 original size:24 final size:24
Alignment explanation
Indices: 19967448--19967497 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19967438 ACAAATCATT
19967448 CAATCTTCTCTTGTTCAAAACAAA
1 CAATCTTCTCTTGTTCAAAACAAA
19967472 CAATCTTCTCTTGTTCAAAACAAA
1 CAATCTTCTCTTGTTCAAAACAAA
19967496 CA
1 CA
19967498 TTTCATCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (24 bp):
CAATCTTCTCTTGTTCAAAACAAA
Found at i:19969624 original size:18 final size:19
Alignment explanation
Indices: 19969596--19969647 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
19969586 TAACAATCAG
*
19969596 AACAATTATTTATTCAG-T
1 AACAATCATTTATTCAGTT
*
19969614 AACAGTCATTTATTC-GTT
1 AACAATCATTTATTCAGTT
*
19969632 AACAATCAATTATTCA
1 AACAATCATTTATTCA
19969648 ATAATAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (19 bp):
AACAATCATTTATTCAGTT
Found at i:19969763 original size:18 final size:18
Alignment explanation
Indices: 19969739--19969875 Score: 152
Period size: 18 Copynumber: 7.6 Consensus size: 18
19969729 AGTAATTAAG
19969739 TTATTCAGTAACAGTC-A
1 TTATTCAGTAACAGTCAA
* * *
19969756 TCTATTCAGTGACAATCAG
1 T-TATTCAGTAACAGTCAA
*
19969775 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * * *
19969793 TCATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
19969811 TTATTCAGTAACAGTCTA
1 TTATTCAGTAACAGTCAA
*
19969829 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
19969847 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
19969865 TTATTCAGTAA
1 TTATTCAGTAA
19969876 TAATCAGTTA
Statistics
Matches: 97, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
17 1 0.01
18 95 0.98
19 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:19969777 original size:36 final size:36
Alignment explanation
Indices: 19969737--19969887 Score: 180
Period size: 36 Copynumber: 4.2 Consensus size: 36
19969727 ATAGTAATTA
*
19969737 AGTTATTCAGTAACAGTC-ATCTATTCAGTGACAATC
1 AGTTATTCAGTAACAGTCAAT-TATTCAGTAACAATC
* * * *
19969773 AGTTATTCAGTAA-TGATCAATCATTCAGTAATATTC
1 AGTTATTCAGTAACAG-TCAATTATTCAGTAACAATC
* * *
19969809 AGTTATTCAGTAACAGTCTATTATCCAGTAACAGTC
1 AGTTATTCAGTAACAGTCAATTATTCAGTAACAATC
* *
19969845 AATTATTCAGTAACAGTCAATTATTCAGTAATAATC
1 AGTTATTCAGTAACAGTCAATTATTCAGTAACAATC
19969881 AGTTATT
1 AGTTATT
19969888 TTATTCCTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.01
36 91 0.96
37 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
AGTTATTCAGTAACAGTCAATTATTCAGTAACAATC
Found at i:19969820 original size:72 final size:72
Alignment explanation
Indices: 19969685--19969887 Score: 216
Period size: 72 Copynumber: 2.8 Consensus size: 72
19969675 AATTGATCGG
* * * * * * *
19969685 TTATCCAGTAATAGTCAATTATTTAGTAA-AATCAGAT-ATTCAATAGTAATTAAGTTATTCAGT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCA-ATCATTCAGTAATAA-TCAGTTATTCAGT
19969748 AACAGTC-A
64 AACAGTCTA
* * * * *
19969756 TCTATTCAGTGACAATCAGTTATTCAGTAA-TGATCAATCATTCAGTAATATTCAGTTATTCAGT
1 T-TATCCAGTAACAATCAATTATTCAGTAACAG-TCAATCATTCAGTAATAATCAGTTATTCAGT
19969820 AACAGTCTA
64 AACAGTCTA
* *
19969829 TTATCCAGTAACAGTCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATCATTCAGTAATAATCAGTTATT
19969888 TTATTCCTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
71 1 0.01
72 92 0.85
73 15 0.14
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATCATTCAGTAATAATCAGTTATTCAGTAA
CAGTCTA
Found at i:19970114 original size:45 final size:45
Alignment explanation
Indices: 19970058--19970157 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
19970048 TCCAGAACAG
* *
19970058 TAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* *
19970103 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
19970148 TAACAGTAAC
1 TAACAGTAAC
19970158 GGTAGTCGGC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:19970152 original size:39 final size:41
Alignment explanation
Indices: 19970062--19970183 Score: 115
Period size: 45 Copynumber: 3.0 Consensus size: 41
19970052 GAACAGTAAC
* * *
19970062 AGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCGATA
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG--A
19970105 ACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG-
1 A--GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
* * * * *
19970147 A-TAACAGTAACGGTAGTCGGCACA-TAAGTGCCTAATC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
19970184 AGTAAGCCGG
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
38 11 0.16
39 20 0.29
42 1 0.01
43 1 0.01
45 36 0.52
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (41 bp):
AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGA
Found at i:19971912 original size:7 final size:7
Alignment explanation
Indices: 19971900--19971945 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
19971890 TTTACTTATT
19971900 TATATAA
1 TATATAA
19971907 TATATAA
1 TATATAA
19971914 TATATAA
1 TATATAA
19971921 TATA-ATA
1 TATATA-A
19971928 TAATATAA
1 T-ATATAA
19971936 TA-ATAA
1 TATATAA
19971942 TATA
1 TATA
19971946 ATATAATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 7 0.20
7 22 0.63
8 5 0.14
9 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:19971916 original size:5 final size:5
Alignment explanation
Indices: 19971901--19971953 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
19971891 TTACTTATTT
19971901 ATATA ATAT- ATA-A TATATA ATATA ATATA ATATA ATAATA ATATA ATATA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
19971951 ATA
1 ATA
19971954 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
4 3 0.07
5 35 0.80
6 6 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:19971940 original size:3 final size:3
Alignment explanation
Indices: 19971903--19971954 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
19971893 ACTTATTTAT
19971903 ATA ATA TATA ATA TATA AT- ATA AT- ATA AT- ATA ATA ATA AT- ATA
1 ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19971946 AT- ATA ATA A
1 ATA ATA ATA A
19971955 CAATTTCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
2 10 0.24
3 26 0.62
4 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:19971941 original size:21 final size:22
Alignment explanation
Indices: 19971908--19971953 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
19971898 TTTATATAAT
19971908 ATATAATATATAATATAATATA
1 ATATAATATATAATATAATATA
19971930 ATATAATA-ATAATATAATATA
1 ATATAATATATAATATAATATA
19971951 ATA
1 ATA
19971954 ACAATTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATAATATATAATATAATATA
Found at i:19971943 original size:16 final size:16
Alignment explanation
Indices: 19971915--19971954 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
19971905 AATATATAAT
19971915 ATATAAT-ATAATATA
1 ATATAATAATAATATA
19971930 ATATAATAATAATATA
1 ATATAATAATAATATA
19971946 ATATAATAA
1 ATATAATAA
19971955 CAATTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAATAATAATATA
Found at i:19971944 original size:26 final size:24
Alignment explanation
Indices: 19971901--19971953 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 24
19971891 TTACTTATTT
19971901 ATATAATATATAATATATAATATA
1 ATATAATATATAATATATAATATA
19971925 ATATAATATAATAATAATATAATATA
1 ATATAATAT-ATAAT-ATATAATATA
19971951 ATA
1 ATA
19971954 ACAATTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.33
25 5 0.19
26 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAATATATAATATATAATATA
Found at i:19973269 original size:43 final size:43
Alignment explanation
Indices: 19973203--19973348 Score: 204
Period size: 43 Copynumber: 3.4 Consensus size: 43
19973193 TTATTTAAAA
* * * *
19973203 AAACGCAGCTAAAGATCAGGACCTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCAC
* *
19973246 AAACGCCGCTAAAGGTCAAGACCTTTCGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCAC
* *
19973289 AGACG-CTCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCAC
*
19973331 AAACGCCGCTACAGGTCA
1 AAACGCCGCTAAAGGTCA
19973349 TAAAAATTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 38 0.43
43 51 0.57
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAGGACCTTTAGCGACGCTTTTCCCAC
Found at i:19973380 original size:18 final size:17
Alignment explanation
Indices: 19973348--19973382 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
19973338 GCTACAGGTC
19973348 ATAAAAATTAAAAAAAA
1 ATAAAAATTAAAAAAAA
19973365 ATAAAATATTATAAAAAA
1 ATAAAA-ATTA-AAAAAA
19973383 GTCCTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAAAATTAAAAAAAA
Found at i:19974020 original size:12 final size:12
Alignment explanation
Indices: 19974003--19974035 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
19973993 TTGAAGAACC
19974003 ATTAATCATGTT
1 ATTAATCATGTT
19974015 ATTAATCATGTT
1 ATTAATCATGTT
19974027 ATTAATCAT
1 ATTAATCAT
19974036 ATATGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:19978098 original size:23 final size:23
Alignment explanation
Indices: 19978079--19978141 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
19978069 TAAAAAATGC
19978079 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAATTT
*
19978102 TAATA-AATATAAAT-TAAAAATTT
1 TAATACAAT-TACATAT-AAAATTT
19978125 TAATACAATTACATATA
1 TAATACAATTACATATA
19978142 TAGGATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.12
23 26 0.76
24 4 0.12
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATACAATTACATATAAAATTT
Found at i:19978161 original size:46 final size:46
Alignment explanation
Indices: 19978079--19978168 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
19978069 TAAAAAATGC
*
19978079 TAATACAATTACATATAAAATTTTAATAAATATAAATTAAAAATTT
1 TAATACAATTACATATAAAATATTAATAAATATAAATTAAAAATTT
* *
19978125 TAATACAATTACATATATAGGATATTAA-ATAT-TAAATTAAAAAT
1 TAATACAATTACATATA-A-AATATTAATAAATATAAATTAAAAAT
19978169 AATATAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 29 0.74
47 4 0.10
48 6 0.15
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (46 bp):
TAATACAATTACATATAAAATATTAATAAATATAAATTAAAAATTT
Found at i:19979320 original size:7 final size:7
Alignment explanation
Indices: 19979308--19979412 Score: 63
Period size: 7 Copynumber: 14.7 Consensus size: 7
19979298 ACTAATTAAT
19979308 CTAAACC
1 CTAAACC
19979315 CTAAACC
1 CTAAACC
*
19979322 TCTTAACCC
1 -C-TAAACC
*
19979331 CT-ATCC
1 CTAAACC
*
19979337 CATAAACA
1 C-TAAACC
*
19979345 CTAAACT
1 CTAAACC
19979352 CTAAACC
1 CTAAACC
*
19979359 CTTAACC
1 CTAAACC
*
19979366 CCAAACC
1 CTAAACC
*
19979373 CTTACACC
1 C-TAAACC
* *
19979381 TTAAACT
1 CTAAACC
19979388 CT-AACC
1 CTAAACC
19979394 CT-AACAC
1 CTAAAC-C
19979401 CTAAACC
1 CTAAACC
19979408 CTAAA
1 CTAAA
19979413 TCATAATCCT
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
6 12 0.16
7 46 0.61
8 12 0.16
9 5 0.07
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:19979386 original size:36 final size:36
Alignment explanation
Indices: 19979308--19979409 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 36
19979298 ACTAATTAAT
* * * *
19979308 CTAAACCCTAAACCTCTTAACCCCTATCCCATAAACA
1 CTAAACTCTAAACC-CTTAACCCCAAACCCTTAAACA
*
19979345 CTAAACTCTAAACCCTTAACCCCAAACCCTTACAC-
1 CTAAACTCTAAACCCTTAACCCCAAACCCTTAAACA
*
19979380 CTTAAACTCT-AACCC-TAACACCTAAACCCT
1 C-TAAACTCTAAACCCTTAAC-CCCAAACCCT
19979410 AAATCATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.07
35 15 0.26
36 25 0.44
37 13 0.23
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (36 bp):
CTAAACTCTAAACCCTTAACCCCAAACCCTTAAACA
Found at i:19979666 original size:40 final size:41
Alignment explanation
Indices: 19979471--19979705 Score: 330
Period size: 41 Copynumber: 5.8 Consensus size: 41
19979461 AACTCCTAAA
* ** **
19979471 GCCGCTAATGCTCTGGTCATTAGCGGCGTTTTTTCGTAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
* * **
19979512 GCCGCTAATGCTCTGGTCATTAGCGGCGTTTTTCCGTAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
*
19979553 GCCGCTAATGCTTTGGTCTTTAGCGGCGTTTTACCAAAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
*
19979594 GCTGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
* *
19979635 GCCGCTAATGCTC-AGTCTTTAGCGGCATTTTACCAAAAGC
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
*
19979675 GCCGCTAATGCTC-AGTCTTTAGCGGCGTTTT
1 GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTT
19979706 TTACTAAAAC
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 55 0.30
41 127 0.70
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.32
Consensus pattern (41 bp):
GCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGC
Found at i:19979728 original size:81 final size:81
Alignment explanation
Indices: 19979473--19979747 Score: 275
Period size: 82 Copynumber: 3.4 Consensus size: 81
19979463 CTCCTAAAGC
* * ** ** * *
19979473 CGCTAATGCTCTGGTCATTAGCGGCGTTTTTTCGTAAGCGCCGCTAATGCTCTGGTCATTAGCGG
1 CGCTAATGCTC-AGTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGG
* ** **
19979538 CGTTTTTCCGTAAGCGC
65 CGTTTTACCAAAAGCAA
** * *
19979555 CGCTAATGCTTTGGTCTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGTCTTTAGCGG
1 CGCTAATGC-TCAGTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGG
**
19979620 CGTTTTACCAAAAGCGC
65 CGTTTTACCAAAAGCAA
*
19979637 CGCTAATGCTCAGTCTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTC-AGTCTTTAGCGGC
1 CGCTAATGCTCAGTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGC
*
19979701 GTTTTTTACTAAAA-CAA
66 G--TTTTACCAAAAGCAA
** * *
19979718 CGCTGTTGCTCTGTTTTTAGCGGCGTTTTA
1 CGCTAATGCTCAGTCTTTAGCGGCGTTTTA
19979748 TAAAGCCCTA
Statistics
Matches: 166, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
80 13 0.08
81 64 0.39
82 88 0.53
83 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (81 bp):
CGCTAATGCTCAGTCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGC
GTTTTACCAAAAGCAA
Found at i:19983662 original size:13 final size:13
Alignment explanation
Indices: 19983644--19983671 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19983634 GGTACCTTGG
19983644 AGAATTTCTATCA
1 AGAATTTCTATCA
19983657 AGAATTTCTATCA
1 AGAATTTCTATCA
19983670 AG
1 AG
19983672 GATTCTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (13 bp):
AGAATTTCTATCA
Found at i:19986152 original size:39 final size:40
Alignment explanation
Indices: 19985995--19986219 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
19985985 GCTCCTCGTT
* * *
19985995 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
19986035 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19986075 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
19986115 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
19986154 TAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
19986195 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19986220 CATCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19986179 original size:119 final size:120
Alignment explanation
Indices: 19985997--19986219 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
19985987 TCCTCGTTCA
* *
19985997 AATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
19986062 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
19986117 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCATAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
19986179 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
19986220 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 65 0.74
120 19 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:19988540 original size:5 final size:5
Alignment explanation
Indices: 19988532--19988557 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19988522 CAAAACATAA
19988532 TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG T
19988558 ATTCCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:19989514 original size:40 final size:40
Alignment explanation
Indices: 19989468--19989649 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
19989458 TTATACTCTT
* * *
19989468 TGTTTGGTGTGTTTTGGTTGGATCAGCTCTTATAAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
* ** * *
19989508 TATTTGGCATGTTTCGGCTCGATCAGATCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
*
19989548 TGTTTGGTGTGTTTCGGTTGGATCAAATCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
* *
19989588 TGTTTGGTGTGTTTCAGTTGGATCAGCTCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
*
19989628 TGTATGGTGTGTTTCGGTTGGA
1 TGTTTGGTGTGTTTCGGTTGGA
19989650 CTAGATTTCC
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.45
Consensus pattern (40 bp):
TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
Found at i:19995079 original size:20 final size:20
Alignment explanation
Indices: 19995046--19995090 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19995036 AGCACATGTA
* * *
19995046 TTCATAAAATTTTATAATTT
1 TTCATAAAAGTTTACAACTT
*
19995066 TTCATCAAAGTTTACAACTT
1 TTCATAAAAGTTTACAACTT
19995086 TTCAT
1 TTCAT
19995091 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAAGTTTACAACTT
Found at i:20002097 original size:40 final size:40
Alignment explanation
Indices: 20002042--20002244 Score: 302
Period size: 40 Copynumber: 5.1 Consensus size: 40
20002032 CGGATGATAA
* * * *
20002042 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
20002082 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
20002122 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
20002162 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
20002202 CCGGGGTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
20002242 CCG
1 CCG
20002245 AAAAAATCCC
Statistics
Matches: 151, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 148 0.98
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:20010069 original size:40 final size:40
Alignment explanation
Indices: 20010010--20010227 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
20010000 CGGATGATAA
* * * *
20010010 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTAATGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
* *
20010050 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
20010090 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
20010130 CCAGGCTAGGTCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
*
20010170 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
* * *
20010210 -CTGGCAAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
20010228 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 17 0.11
40 139 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:20016210 original size:20 final size:18
Alignment explanation
Indices: 20016176--20016222 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
20016166 TTCCTCAAGC
20016176 AAACGAAAAATAAAATAA
1 AAACGAAAAATAAAATAA
*
20016194 AAACGAAGAAGATAAAATTA
1 AAACGAA-AA-ATAAAATAA
*
20016214 AAACTAAAA
1 AAACGAAAA
20016223 GAAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 4 0.16
20 14 0.56
ACGTcount: A:0.72, C:0.06, G:0.09, T:0.13
Consensus pattern (18 bp):
AAACGAAAAATAAAATAA
Found at i:20023186 original size:11 final size:12
Alignment explanation
Indices: 20023170--20023206 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
20023160 AGGTTTCTAG
20023170 AAGAGTTTGAA-
1 AAGAGTTTGAAT
20023181 AAGAGTTTGAAT
1 AAGAGTTTGAAT
20023193 AAG-GTTTGAAT
1 AAGAGTTTGAAT
20023204 AAG
1 AAG
20023207 TTGTTGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 22 0.88
12 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (12 bp):
AAGAGTTTGAAT
Found at i:20024706 original size:27 final size:27
Alignment explanation
Indices: 20024627--20024715 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
20024617 GACCTTAGAT
* * * *
20024627 TGTAAAATTTCTGAAATACCCC-CTATT
1 TGTAAAATTACCGAAATACCCCTGTA-G
* * **
20024654 TGTAAAATTACCCAAATAACATTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
20024681 TGTAAAATTACCGAAATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
*
20024708 GGTAAAAT
1 TGTAAAAT
20024716 GACTGTTTTG
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 46 0.96
28 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTGTAG
Found at i:20025128 original size:44 final size:44
Alignment explanation
Indices: 20025064--20025168 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
20025054 CCGCTTAATC
* * * *
20025064 TGATTATGGCTTTGTGCCAACCTGAATATTGCTCTGTGCTATGT
1 TGATTATGGCTTTGTACCAACCTAAATATGGCTCTATGCTATGT
* *
20025108 TGATTATGACTCTGTACCAACCTAAATATGGCTCTATGCTATGT
1 TGATTATGGCTTTGTACCAACCTAAATATGGCTCTATGCTATGT
*
20025152 TAATTATGGCTTTGTAC
1 TGATTATGGCTTTGTAC
20025169 AAATCGTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (44 bp):
TGATTATGGCTTTGTACCAACCTAAATATGGCTCTATGCTATGT
Found at i:20031630 original size:68 final size:67
Alignment explanation
Indices: 20031583--20031740 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 67
20031573 ATACTATATA
20031583 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
20031648 AAT
65 AAT
20031651 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
20031716 AAT
65 AAT
* *
20031719 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
20031741 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:20031814 original size:66 final size:67
Alignment explanation
Indices: 20031617--20031814 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
20031607 GGGATGTATC
* * *
20031617 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
20031679 TGTATC-
62 AGGA-CA
*
20031685 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
20031750 AGGACA
62 AGGACA
* *
20031756 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
20031815 TTGACCATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:20043595 original size:13 final size:13
Alignment explanation
Indices: 20043577--20043606 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20043567 ATAACATTTT
*
20043577 ATTTCAAATATTC
1 ATTTCAAATATCC
20043590 ATTTCAAATATCC
1 ATTTCAAATATCC
20043603 ATTT
1 ATTT
20043607 TCACATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTCAAATATCC
Found at i:20044089 original size:24 final size:24
Alignment explanation
Indices: 20044062--20044113 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
20044052 CTTTTTTTAT
* * *
20044062 CTTTTCAATGGTATCCTTTTCGAC
1 CTTTACAATGGTAACCTTTTCAAC
*
20044086 CTTTACATTGGTAACCTTTTCAAC
1 CTTTACAATGGTAACCTTTTCAAC
20044110 CTTT
1 CTTT
20044114 CCATTGTGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.46
Consensus pattern (24 bp):
CTTTACAATGGTAACCTTTTCAAC
Found at i:20044118 original size:24 final size:24
Alignment explanation
Indices: 20044070--20044119 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
20044060 ATCTTTTCAA
* *
20044070 TGGTATCCTTTTCGACCTTTACAT
1 TGGTAACCTTTTCAACCTTTACAT
*
20044094 TGGTAACCTTTTCAACCTTTCCAT
1 TGGTAACCTTTTCAACCTTTACAT
20044118 TG
1 TG
20044120 TGTCAGGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (24 bp):
TGGTAACCTTTTCAACCTTTACAT
Found at i:20046537 original size:17 final size:17
Alignment explanation
Indices: 20046515--20046550 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
20046505 TAGAGACCAA
20046515 AATGATTTCCAAGGCTT
1 AATGATTTCCAAGGCTT
20046532 AATGATTTCCAAGGCTT
1 AATGATTTCCAAGGCTT
20046549 AA
1 AA
20046551 AGCAGCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (17 bp):
AATGATTTCCAAGGCTT
Found at i:20047024 original size:20 final size:20
Alignment explanation
Indices: 20046996--20047105 Score: 63
Period size: 21 Copynumber: 5.6 Consensus size: 20
20046986 TTTTTTGACA
20046996 TATTCATATT-TTTTACTATAT-
1 TATT-ATATTATTTTA-TAT-TC
20047017 TATTATATTATTTTATATTC
1 TATTATATTATTTTATATTC
*
20047037 TATTATA-TATTTATATTATTA
1 TATTATATTATTT-TA-TATTC
** * *
20047058 TAACATATTA-TTTATTTTG
1 TATTATATTATTTTATATTC
* *
20047077 TATTAT-TTA-TATATATTA
1 TATTATATTATTTTATATTC
20047095 T-TTATATTATT
1 TATTATATTATT
20047106 ATTTTTATAT
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
17 4 0.06
18 13 0.18
19 14 0.19
20 19 0.26
21 20 0.28
22 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (20 bp):
TATTATATTATTTTATATTC
Found at i:20047072 original size:14 final size:14
Alignment explanation
Indices: 20047020--20047109 Score: 64
Period size: 13 Copynumber: 6.7 Consensus size: 14
20047010 ACTATATTAT
*
20047020 TATATTATTTTATAT
1 TATATTA-TTTATAA
* * *
20047035 TCTATTATATAT-T
1 TATATTATTTATAA
20047048 TATATTA-TTATAA
1 TATATTATTTATAA
* **
20047061 CATATTATTTATTT
1 TATATTATTTATAA
*
20047075 TGTATTATTTAT-A
1 TATATTATTTATAA
20047088 TATATTATTTAT-A
1 TATATTATTTATAA
20047101 T-TATTATTT
1 TATATTATTT
20047110 TTATATTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
12 11 0.18
13 26 0.43
14 18 0.30
15 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (14 bp):
TATATTATTTATAA
Found at i:20047084 original size:36 final size:33
Alignment explanation
Indices: 20047042--20047123 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 33
20047032 TATTCTATTA
20047042 TATATTTATAT-TATTATAACATATTATTTATTTT
1 TATATTTATATATATTAT-ACATATTA-TTATTTT
**
20047076 GTATTATTTATATATATTATTTATATTATTATTTT
1 -TA-TATTTATATATATTATACATATTATTATTTT
*
20047111 TATATTTAAATAT
1 TATATTTATATAT
20047124 TAAATCGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 10 0.24
34 2 0.05
35 9 0.21
36 15 0.36
37 6 0.14
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (33 bp):
TATATTTATATATATTATACATATTATTATTTT
Found at i:20047092 original size:27 final size:26
Alignment explanation
Indices: 20047022--20047115 Score: 84
Period size: 26 Copynumber: 3.5 Consensus size: 26
20047012 TATATTATTA
* * *
20047022 TATTATTTTATATTCTATTATATATTTA
1 TATTA-TTTATA-TATATTATTTATTTT
*
20047050 TATTA-TTATAACATATTATTTATTTT
1 TATTATTTAT-ATATATTATTTATTTT
*
20047076 GTATTATTTATATATATTATTTA-TAT
1 -TATTATTTATATATATTATTTATTTT
*
20047102 TATTATTTTTATAT
1 TATTATTTATATAT
20047116 TTAAATATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
25 13 0.23
26 17 0.30
27 17 0.30
28 9 0.16
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (26 bp):
TATTATTTATATATATTATTTATTTT
Found at i:20047098 original size:49 final size:49
Alignment explanation
Indices: 20047013--20047107 Score: 133
Period size: 49 Copynumber: 1.9 Consensus size: 49
20047003 ATTTTTTACT
*
20047013 ATATTATTATATTATTTTATATTCTATTATATATTTATATTATTATAAC
1 ATATTATTATATTATTGTATATTCTATTATATATTTATATTATTATAAC
20047062 ATATTATT-TATT-TTGTATTATT-TATATATATTATTTATATTATTAT
1 ATATTATTATATTATTGTA-TATTCTAT-TATA-TATTTATATTATTAT
20047108 TTTTATATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 7 0.17
48 12 0.29
49 23 0.55
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (49 bp):
ATATTATTATATTATTGTATATTCTATTATATATTTATATTATTATAAC
Found at i:20057861 original size:47 final size:47
Alignment explanation
Indices: 20057795--20058465 Score: 859
Period size: 47 Copynumber: 14.1 Consensus size: 47
20057785 GAAATGATAG
*
20057795 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20057842 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20057889 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20057936 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20057983 TAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20058030 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * ** *
20058077 TAAGGCCTAATAGCCGATGTGATGAATAT-AAGGCCTAATAGCCGATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT-ATA---TATGTGA
* *** *** * * *
20058127 TGAATGTGAAAGT-GTATATATGTGAT-AAGGCCT-AATAGCCG-ATGTGATGAAT-A
1 T-AAGGCCTAA-TAG--CCGATGTGATGAATG--TGAA-AG-TGTATAT-ATG--TGA
20058180 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20058227 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20058274 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20058321 TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20058368 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
20058415 CAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20058462 TAAG
1 TAAG
20058466 TCCCGAAGGG
Statistics
Matches: 550, Mismatches: 54, Indels: 40
0.85 0.08 0.06
Matches are distributed among these distances:
46 5 0.01
47 480 0.87
48 4 0.01
49 6 0.01
50 16 0.03
51 10 0.02
52 12 0.02
53 9 0.02
54 6 0.01
55 1 0.00
56 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20058116 original size:28 final size:28
Alignment explanation
Indices: 20058076--20058206 Score: 138
Period size: 28 Copynumber: 5.0 Consensus size: 28
20058066 TATATATGTG
20058076 ATAAGGCCTAATAGCCGATGTGATGAAT
1 ATAAGGCCTAATAGCCGATGTGATGAAT
20058104 ATAAGGCCTAATAGCCGATGTGATGAAT
1 ATAAGGCCTAATAGCCGATGTGATGAAT
* * * **
20058132 GT---G---AA-AG-TGTATAT-ATG-TG
1 ATAAGGCCTAATAGCCG-ATGTGATGAAT
20058151 ATAAGGCCTAATAGCCGATGTGATGAAT
1 ATAAGGCCTAATAGCCGATGTGATGAAT
20058179 ATAAGGCCTAATAGCCGATGTGATGAAT
1 ATAAGGCCTAATAGCCGATGTGATGAAT
20058207 GTGAAAGTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.01
20 4 0.05
21 5 0.06
22 3 0.04
25 3 0.04
26 5 0.06
27 4 0.05
28 57 0.70
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (28 bp):
ATAAGGCCTAATAGCCGATGTGATGAAT
Found at i:20058124 original size:75 final size:75
Alignment explanation
Indices: 20058029--20058253 Score: 432
Period size: 75 Copynumber: 3.0 Consensus size: 75
20058019 TATATATGTG
* *
20058029 ATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
20058094 TGTGATGAAT
66 TGTGATGAAT
20058104 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
20058169 TGTGATGAAT
66 TGTGATGAAT
20058179 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
20058244 TGTGATGAAT
66 TGTGATGAAT
20058254 GTGAAAGTGT
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 148 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.28
Consensus pattern (75 bp):
ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
TGTGATGAAT
Found at i:20058126 original size:122 final size:123
Alignment explanation
Indices: 20057980--20058348 Score: 495
Period size: 122 Copynumber: 3.0 Consensus size: 123
20057970 TGTATATATG
* * *
20057980 TGATAAGACCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCT
1 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
*
20058045 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
66 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATGATGAA
20058103 T-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
* * ** * * *
20058167 GATGTGATGAATAT-AAGGCCTAATAGCCGATGTGATGAATG--TGAA-AG-TGTATAT-ATG--
66 GATGTGATGAATGTGAAAGTGT-ATA---TATGTGAT-AAGGCCT-AATAGCCG-ATATGATGAA
20058224 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
* *
20058289 GATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATATGATGAA
66 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATGATGAA
20058347 TG
1 TG
20058349 TGAAAGTGTA
Statistics
Matches: 210, Mismatches: 20, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
118 3 0.01
119 8 0.04
120 6 0.03
121 9 0.04
122 155 0.74
123 11 0.05
124 6 0.03
125 9 0.04
126 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (123 bp):
TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATGATGAA
Found at i:20058640 original size:37 final size:37
Alignment explanation
Indices: 20058584--20058662 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
20058574 CTGAGCTCTA
* *
20058584 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
20058621 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20058658 AAGAC
1 AAGAC
20058663 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20068317 original size:20 final size:20
Alignment explanation
Indices: 20068294--20068361 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
20068284 AGGGCACCGT
20068294 AGTGCAAACAGGGGCACAAA
1 AGTGCAAACAGGGGCACAAA
* * ** *
20068314 AGTGAAAATAGAAGTACAAA
1 AGTGCAAACAGGGGCACAAA
* **
20068334 AGTACAAACAGGGGCACCGA
1 AGTGCAAACAGGGGCACAAA
20068354 AGTGCAAA
1 AGTGCAAA
20068362 ATAGAGGCAC
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.26, T:0.09
Consensus pattern (20 bp):
AGTGCAAACAGGGGCACAAA
Found at i:20070315 original size:19 final size:19
Alignment explanation
Indices: 20070291--20070330 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
20070281 TGAAAATGTG
20070291 TAAGTTATGCCTACGAATT
1 TAAGTTATGCCTACGAATT
*
20070310 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTACGAATT
20070329 TA
1 TA
20070331 TGATGACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
TAAGTTATGCCTACGAATT
Found at i:20078151 original size:19 final size:19
Alignment explanation
Indices: 20078127--20078163 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20078117 TGAAAATGTG
20078127 TAAGTTATGCCTACGAATT
1 TAAGTTATGCCTACGAATT
*
20078146 TAAGTTATGCCTATGAAT
1 TAAGTTATGCCTACGAAT
20078164 CTATGATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
TAAGTTATGCCTACGAATT
Found at i:20081833 original size:42 final size:42
Alignment explanation
Indices: 20081786--20081903 Score: 186
Period size: 42 Copynumber: 2.8 Consensus size: 42
20081776 TGTGATTTCG
20081786 TGTAAGACCATGTTTGGGACATTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTTTGGGACATTGGCATCGATATGAGATTCA
*
20081828 TGTAAGACCATGTTTGAGACATTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTTTGGGACATTGGCATCGATATGAGATTCA
*
20081870 TGTAAGACCATAG-CTGGG-CTATTGGCATCGATAT
1 TGTAAGACCAT-GTTTGGGAC-ATTGGCATCGATAT
20081904 ACTATAACAT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 1 0.01
42 69 0.97
43 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGATATGAGATTCA
Found at i:20082823 original size:21 final size:22
Alignment explanation
Indices: 20082799--20082843 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
20082789 GGTATAGGGT
20082799 TGATGAATTGGTACATTTTGTTGA
1 TGATGAATTGGTACATTTTG-T-A
*
20082823 TGATGAATTGGTATATTTTGT
1 TGATGAATTGGTACATTTTGT
20082844 GGCATGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (22 bp):
TGATGAATTGGTACATTTTGTA
Found at i:20088812 original size:27 final size:27
Alignment explanation
Indices: 20088781--20088958 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20088771 TAAATTGTAC
20088781 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20088808 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20088834 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20088862 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20088890 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20088917 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20088944 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20088959 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20088895 original size:82 final size:81
Alignment explanation
Indices: 20088782--20088937 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20088772 AAATTGTACA
* *
20088782 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20088846 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20088863 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20088928 TGCGAGTTGA
65 TGCGAATTGA
20088938 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20088949 original size:82 final size:81
Alignment explanation
Indices: 20088778--20088958 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20088768 GATTAAATTG
* *
20088778 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20088843 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20088859 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20088923 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20088941 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20088959 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20096985 original size:27 final size:27
Alignment explanation
Indices: 20096954--20097131 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20096944 TAAATTGTAC
20096954 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20096981 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20097007 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20097035 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20097063 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20097090 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20097117 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20097132 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20097068 original size:82 final size:81
Alignment explanation
Indices: 20096955--20097110 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20096945 AAATTGTACA
* *
20096955 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20097019 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20097036 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20097101 TGCGAGTTGA
65 TGCGAATTGA
20097111 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20097122 original size:82 final size:81
Alignment explanation
Indices: 20096951--20097131 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20096941 GATTAAATTG
* *
20096951 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20097016 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20097032 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20097096 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20097114 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20097132 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20099224 original size:53 final size:54
Alignment explanation
Indices: 20099143--20099340 Score: 213
Period size: 53 Copynumber: 3.7 Consensus size: 54
20099133 TTTCCCTTTT
* * * *
20099143 GAACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGGATCTTTGCCTTAT-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATA
* * *
20099196 GAACTCACCAATGCCATGTCTTGGCATGGTCTTACATGGGACCTTTACCTTATA
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATA
* *** *
20099250 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATA
* * * * *
20099305 GAACTTATCAATG-CTTGCCTTGGCAT-GTCTTACATG
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATG
20099341 ATATCCTTAT
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
52 10 0.08
53 56 0.45
54 12 0.10
55 46 0.37
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATA
Found at i:20099302 original size:55 final size:54
Alignment explanation
Indices: 20099157--20099348 Score: 212
Period size: 55 Copynumber: 3.6 Consensus size: 54
20099147 TTACCATTGT
* * * *
20099157 CATGTCTTGACATGGTCTTACGTGGGATCTTTGCCTTAT-GAACTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAACTCATCAATGC
* * *
20099210 CATGTCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTCATCAATGC
1 CATGTCTTGACATGGTCTTACATGAGATCC-TTGCCTTATAG-AACTCATCAATGC
** *
20099265 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG-
1 CATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAACTCATCAATGC
* * * *
20099318 CTTGCCTTGGCAT-GTCTTACATGATATCCTT
1 CATGTCTTGACATGGTCTTACATGAGATCCTT
20099349 ATGTTACCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
52 18 0.15
53 43 0.36
54 12 0.10
55 45 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
CATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAACTCATCAATGC
Found at i:20099382 original size:47 final size:47
Alignment explanation
Indices: 20099331--20099489 Score: 273
Period size: 47 Copynumber: 3.4 Consensus size: 47
20099321 GCCTTGGCAT
* *
20099331 GTCTTACATGATATCCTTATGTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATG
*
20099378 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATG
* *
20099425 GTCTTACATGGTATCCATCTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATG
20099472 GTCTTACATGGTATCCTT
1 GTCTTACATGGTATCCTT
20099490 GTATTAGTGC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 106 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATG
Found at i:20099537 original size:142 final size:140
Alignment explanation
Indices: 20099376--20099629 Score: 309
Period size: 142 Copynumber: 1.8 Consensus size: 140
20099366 GTTCCAAACA
* * * *
20099376 TGGTCTTACATGGTATCCTT-GTC-TTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTAT
1 TGGTCTTACATGGTATCCTTAATCAATACC-AATGCCATG-TCCAAACATGGTCTTACAAGGGAT
20099439 CCAT-CTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTATTAGTGCCAA
64 CCATGC-CTTACC-AATGCCATG-TCCAAACATGGTCTTACATGGTATCCTTGTATTAGTGCCAA
20099503 TGCCACATCTTGATG
126 TGCCACATCTTGATG
* * ***
20099518 TGGTCTTACATGG-AGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACAAGGGATC
1 TGGTCTTACATGGTA-TCCTTAATCAATACCAATGCCATGTCCAAACATGGTCTTACAAGGGATC
* ***
20099582 CTTGCCTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
65 CATGCCTTACCAATGCCATGTCCAAACATGGTCTTACATGGTATCCTT
20099630 AATCGTCAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
140 25 0.26
141 10 0.11
142 46 0.48
143 11 0.12
144 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (140 bp):
TGGTCTTACATGGTATCCTTAATCAATACCAATGCCATGTCCAAACATGGTCTTACAAGGGATCC
ATGCCTTACCAATGCCATGTCCAAACATGGTCTTACATGGTATCCTTGTATTAGTGCCAATGCCA
CATCTTGATG
Found at i:20099570 original size:47 final size:47
Alignment explanation
Indices: 20099373--20099633 Score: 176
Period size: 47 Copynumber: 5.6 Consensus size: 47
20099363 CATGTTCCAA
* * * ***
20099373 ACATGGTCTTACATGGTATCCTT-GTC-TTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTAATCAATGCC-AATGCCATG-TCTTG
* * * * ***
20099420 ACATGGTCTTACATGGTATCCAT-CTC-TTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTAATCAATGCC-AATGCCATG-TCTTG
* * * **
20099467 ACATGGTCTTACATGGTATCCTTGTATTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTT-AATCAATGCCAATGCCATGTCTTG
** *
20099515 ATGTGGTCTTACATGG-AGTCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATCAATGCCAATGCCATGTCTTG
* * * ** *
20099562 ACATGGTCTTACAAGGGATCCTT--GCCTTACCAATGCCATGTCTTG
1 ACATGGTCTTACATGGTATCCTTAATCAATGCCAATGCCATGTCTTG
20099607 ACATGGTCTTACATGGTATCCTTAATC
1 ACATGGTCTTACATGGTATCCTTAATC
20099634 GTCAATTCCT
Statistics
Matches: 176, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
45 38 0.22
47 105 0.60
48 22 0.12
49 8 0.05
50 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTAATCAATGCCAATGCCATGTCTTG
Found at i:20103729 original size:42 final size:42
Alignment explanation
Indices: 20103682--20103831 Score: 187
Period size: 42 Copynumber: 3.5 Consensus size: 42
20103672 GGGATGTGAT
*
20103682 TTCGTGTAAGACCATTTCTGGGACATTGGCATCGATATGAGA
1 TTCGTGTAAGACCATATCTGGGACATTGGCATCGATATGAGA
* **
20103724 TTCGTGTAAGACCATGTCTGTAACATTGGCATCGATATGAGA
1 TTCGTGTAAGACCATATCTGGGACATTGGCATCGATATGAGA
* *
20103766 TTCGTGTAAGACCATAGCTGGG-CTATTGGCATCGATAT-ACTA
1 TTCGTGTAAGACCATATCTGGGAC-ATTGGCATCGATATGA-GA
* *
20103808 TAACATGTAAGACCATATCTGGGA
1 T-TCGTGTAAGACCATATCTGGGA
20103832 TATGAAATTG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 73 0.78
43 18 0.19
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
TTCGTGTAAGACCATATCTGGGACATTGGCATCGATATGAGA
Done.