Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 53 of 161
Found at i:16479529 original size:21 final size:21
Alignment explanation
Indices: 16479505--16479544 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16479495 TTTCGTTGAA
16479505 CCTCAGCTTCTCTCGCTGCTG
1 CCTCAGCTTCTCTCGCTGCTG
*
16479526 CCTCTGCTTCTCTCGCTGC
1 CCTCAGCTTCTCTCGCTGC
16479545 CGCATCTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.45, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCAGCTTCTCTCGCTGCTG
Found at i:16479547 original size:87 final size:87
Alignment explanation
Indices: 16479438--16479605 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 87
16479428 CTTCGCTTTA
16479438 GCCTCTGCTTCTCTCACTGCCGCATCTACTTTAAGCTGCT-GCTAGAGTTCTTCATA-CTTTCGT
1 GCCTCTGCTTCTCTCACTGCCGCATCTACTTTAAGCTG-TAGCTAGAGTTCTTCATATCTTT-GT
16479501 TGAACCTCAGCTTCTCTCGCTGCT
64 TGAACCTCAGCTTCTCTCGCTGCT
* * * * *
16479525 GCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTG
1 GCCTCTGCTTCTCTCACTGCCGCATCTACTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTG
16479590 AACCTCAGCTTCTCTC
66 AACCTCAGCTTCTCTC
16479606 AATGTTGCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
86 1 0.01
87 69 0.93
88 4 0.05
ACGTcount: A:0.13, C:0.32, G:0.17, T:0.39
Consensus pattern (87 bp):
GCCTCTGCTTCTCTCACTGCCGCATCTACTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTG
AACCTCAGCTTCTCTCGCTGCT
Found at i:16479552 original size:21 final size:21
Alignment explanation
Indices: 16479510--16479555 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
16479500 TTGAACCTCA
* *
16479510 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
16479531 GCTTCTCTCGCTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
16479552 GCTT
1 GCTT
16479556 TAAGTTGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.41, G:0.20, T:0.37
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:16481204 original size:47 final size:47
Alignment explanation
Indices: 16481129--16481222 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
16481119 AACACTAGAC
*
16481129 CACCTCCACATGCATTAATCAAATCCTAAATTATATTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
* * * *
16481176 CACCTCCATATGCATTAATCAAGCCCTAAATTATCTTTTGGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
16481223 AATCAAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (47 bp):
CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
Found at i:16481906 original size:13 final size:12
Alignment explanation
Indices: 16481878--16481912 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
16481868 GGGAAAAATC
16481878 GGGAGCAATTTTG
1 GGGAG-AATTTTG
16481891 GGGAGAATTTTG
1 GGGAGAATTTTG
*
16481903 GGGGGAATTT
1 GGGAGAATTT
16481913 CGGCTAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.23, C:0.03, G:0.43, T:0.31
Consensus pattern (12 bp):
GGGAGAATTTTG
Found at i:16482245 original size:16 final size:16
Alignment explanation
Indices: 16482224--16482255 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16482214 TATTTATTTC
16482224 TTAACTGTATCTTTTA
1 TTAACTGTATCTTTTA
16482240 TTAACTGTATCTTTTA
1 TTAACTGTATCTTTTA
16482256 ATTACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAACTGTATCTTTTA
Found at i:16483607 original size:25 final size:26
Alignment explanation
Indices: 16483571--16483622 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
16483561 TATAGTACGC
* **
16483571 ATTAACCGTAAATCTTAAACCC-TAA
1 ATTAACCATAAAAATTAAACCCGTAA
16483596 ATTAACCATAAAAATTAAACCCGTAA
1 ATTAACCATAAAAATTAAACCCGTAA
16483622 A
1 A
16483623 CCACAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (26 bp):
ATTAACCATAAAAATTAAACCCGTAA
Found at i:16491991 original size:20 final size:19
Alignment explanation
Indices: 16491953--16491991 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16491943 AAGATAAAAG
* *
16491953 ATGTTGACGAGAATGATAA
1 ATGTTGAAGAGAATAATAA
16491972 ATGTTGAAGCAGAATAATAA
1 ATGTTGAAG-AGAATAATAA
16491992 TATAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (19 bp):
ATGTTGAAGAGAATAATAA
Found at i:16496644 original size:22 final size:22
Alignment explanation
Indices: 16496619--16496660 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
16496609 TGCAGAGGTA
16496619 ATTTCTGCTTCTTCTTCCATTG
1 ATTTCTGCTTCTTCTTCCATTG
16496641 ATTTCTGCTTCTTCTTCCAT
1 ATTTCTGCTTCTTCTTCCAT
16496661 CGTTTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.10, C:0.29, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTTCTGCTTCTTCTTCCATTG
Found at i:16496667 original size:22 final size:22
Alignment explanation
Indices: 16496619--16496668 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
16496609 TGCAGAGGTA
*
16496619 ATTTCTGCTTCTTCTTCCATTG
1 ATTTCTGCTTCTTCTTCCATCG
16496641 ATTTCTGCTTCTTCTTCCATCG
1 ATTTCTGCTTCTTCTTCCATCG
*
16496663 TTTTCT
1 ATTTCT
16496669 TATTTAGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.28, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTTCTGCTTCTTCTTCCATCG
Found at i:16500298 original size:49 final size:49
Alignment explanation
Indices: 16500245--16500348 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
16500235 TCATGTGTTA
* * *
16500245 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
16500294 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
16500343 TAATTT
1 TAATTT
16500349 GTTTTTTTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:16501864 original size:120 final size:120
Alignment explanation
Indices: 16501735--16502936 Score: 2153
Period size: 120 Copynumber: 10.0 Consensus size: 120
16501725 AAGTAGATTA
16501735 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
16501800 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
* * *
16501855 TAGAA-TATATTTTATGGTGTTATATATTACGATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TA-AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
*
16501919 TAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
65 TAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
16501975 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
16502040 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
16502095 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
16502160 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
16502215 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
16502280 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
16502335 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
16502400 AAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
16502455 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
16502520 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
16502575 TAAATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
** * *
16502636 TTGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATGT
* * * * *
16502693 TAAATTATATTTTAAATTATTATATATTATGATTATAGTAAATTCATTTAATAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
16502758 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
16502813 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
16502878 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
16502933 TAAA
1 TAAA
16502937 ATATTATTAA
Statistics
Matches: 1041, Mismatches: 33, Indels: 16
0.96 0.03 0.01
Matches are distributed among these distances:
116 52 0.05
118 25 0.02
119 69 0.07
120 842 0.81
121 2 0.00
122 51 0.05
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
Found at i:16502426 original size:18 final size:18
Alignment explanation
Indices: 16502405--16502440 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16502395 ATATTAAGAA
16502405 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
16502423 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
16502441 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:16502662 original size:18 final size:17
Alignment explanation
Indices: 16502641--16502678 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
16502631 ATATTTTGAA
*
16502641 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
16502659 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
16502676 TTT
1 TTT
16502679 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:16502705 original size:12 final size:12
Alignment explanation
Indices: 16502665--16502712 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
16502655 ATATTTTTAC
16502665 TAAATTATATTTT
1 TAAATTATA-TTT
*
16502678 TAATAATAATTATTT
1 T-A-AATTA-TATTT
16502693 TAAATTATATTT
1 TAAATTATATTT
16502705 TAAATTAT
1 TAAATTAT
16502713 TATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 13 0.43
13 5 0.17
14 2 0.07
15 8 0.27
16 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATTATATTT
Found at i:16503187 original size:16 final size:16
Alignment explanation
Indices: 16503149--16503188 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
16503139 TTGAATTACT
*
16503149 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
16503165 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
16503181 ATTACAGC
1 ATTACAGC
16503189 GAACCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:16521846 original size:15 final size:15
Alignment explanation
Indices: 16521823--16521853 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16521813 AAACTTTTCC
*
16521823 AAGGTAATTTAACCT
1 AAGGGAATTTAACCT
16521838 AAGGGAATTTAACCT
1 AAGGGAATTTAACCT
16521853 A
1 A
16521854 GGTAAATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (15 bp):
AAGGGAATTTAACCT
Found at i:16523438 original size:21 final size:21
Alignment explanation
Indices: 16523415--16523537 Score: 146
Period size: 21 Copynumber: 6.0 Consensus size: 21
16523405 TTTTCAATTT
* *
16523415 AGCTCTTTCGAGCTCCTGTTT
1 AGCTCTTTCGAGCTTCTGTTC
16523436 AGCTCTTTCGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
*
16523457 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTTCGAGCTTCTGTTC
* * *
16523478 AACTCTTAT-GAGTTTCTGTTT
1 AGCTCTT-TCGAGCTTCTGTTC
16523499 AGCTCTTAT-GAGCTTCTGTTC
1 AGCTCTT-TCGAGCTTCTGTTC
16523520 A--TCTTTCGAGCTTCTGTT
1 AGCTCTTTCGAGCTTCTGTT
16523538 GGCGTATCTG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
18 1 0.01
19 15 0.17
21 74 0.82
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (21 bp):
AGCTCTTTCGAGCTTCTGTTC
Found at i:16523861 original size:26 final size:26
Alignment explanation
Indices: 16523831--16523883 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
16523821 ATGGTAAAAG
16523831 AATGATATGTATCCTGACATGAACAT
1 AATGATATGTATCCTGACATGAACAT
16523857 AATGATATGTATCCTGACATGAACAT
1 AATGATATGTATCCTGACATGAACAT
16523883 A
1 A
16523884 TACAAATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (26 bp):
AATGATATGTATCCTGACATGAACAT
Found at i:16528466 original size:24 final size:23
Alignment explanation
Indices: 16528430--16528479 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
16528420 TTAATTCCAA
*
16528430 TTATTTTAATATT-TTATTTTATT
1 TTATTTTAATATTCCTA-TTTATT
*
16528453 TTATTTTACTTATTCCTATTTATT
1 TTATTTTA-ATATTCCTATTTATT
16528477 TTA
1 TTA
16528480 ACAATCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 13 0.57
25 2 0.09
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTTAATATTCCTATTTATT
Found at i:16538182 original size:24 final size:25
Alignment explanation
Indices: 16538153--16538218 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
16538143 TGTTTTAAAC
16538153 CAAATTAGACTGGGCTTTGAGAA-A
1 CAAATTAGACTGGGCTTTGAGAAGA
* *
16538177 CAAATTA-ATTTGGACTTTGAGAAGA
1 CAAATTAGA-CTGGGCTTTGAGAAGA
* *
16538202 -AAAATAGACTGTGCTTT
1 CAAATTAGACTGGGCTTT
16538219 TGAAAATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 30 0.91
25 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (25 bp):
CAAATTAGACTGGGCTTTGAGAAGA
Found at i:16545700 original size:21 final size:21
Alignment explanation
Indices: 16545657--16545712 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
16545647 AAGCAGATGG
*
16545657 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAA-CAATTATAT
*
16545679 AGCCACTGCAAACAATTGTAT
1 AGCCACTGCAAACAATTATAT
16545700 AGCCACTGCAAAC
1 AGCCACTGCAAAC
16545713 GGGGGAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCACTGCAAACAATTATAT
Found at i:16546852 original size:61 final size:61
Alignment explanation
Indices: 16546784--16547191 Score: 816
Period size: 61 Copynumber: 6.7 Consensus size: 61
16546774 AAAAATGGCA
16546784 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
16546845 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
16546906 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
16546967 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
16547028 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
16547089 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
16547150 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACA
1 AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACA
16547192 TAAAGCAGAC
Statistics
Matches: 347, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 347 1.00
ACGTcount: A:0.61, C:0.14, G:0.17, T:0.08
Consensus pattern (61 bp):
AGAGGAACAAAACATGGTACAGAAACAGAAAATAGAGAAACAAAAAACCACTACAGAAAAT
Found at i:16547300 original size:100 final size:100
Alignment explanation
Indices: 16547191--16547391 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
16547181 ATAGAGAAAC
16547191 ATAAAGCAGACAAAATATGAAAAATGTTGGAGCAAAGAACCTGTAATTCAGGACAAACAAACAAA
1 ATAAAGCAGACAAAATATGAAAAATGTTGGAGCAAAGAACCTGTAATTCAGGACAAACAAACAAA
16547256 CAATGGAAAAAAAACCATAACCGGCAAGAAACGAA
66 CAATGGAAAAAAAACCATAACCGGCAAGAAACGAA
16547291 ATAAAGCAGACAAAATATGAAAAATGTTGGAGCAAAGAACCTGTAATTCAGGACAAACAAACAAA
1 ATAAAGCAGACAAAATATGAAAAATGTTGGAGCAAAGAACCTGTAATTCAGGACAAACAAACAAA
16547356 CAATGGAAAAAAAACCATAACCGGCAAGAAACGAA
66 CAATGGAAAAAAAACCATAACCGGCAAGAAACGAA
16547391 A
1 A
16547392 CGCCGATTTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.55, C:0.16, G:0.17, T:0.12
Consensus pattern (100 bp):
ATAAAGCAGACAAAATATGAAAAATGTTGGAGCAAAGAACCTGTAATTCAGGACAAACAAACAAA
CAATGGAAAAAAAACCATAACCGGCAAGAAACGAA
Found at i:16553063 original size:50 final size:49
Alignment explanation
Indices: 16552959--16553138 Score: 154
Period size: 50 Copynumber: 3.6 Consensus size: 49
16552949 GAGGTCCAAC
* * * ** *
16552959 GTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGGTCTTCC-
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGATAT-A-AGAACTCCCT
*
16553009 GTAAGACCATGTCTGGGACATGGCATAGGCACCGATATAAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGATATAAGAACTCCC-T
* * * *
16553059 GTAAGACCA-GATCTGGGATATGACATTGGTA--G-TATAGGAAACATCCCCT
1 GTAAGACCATG-TCTGGGACATGGCATTGGCACCGATATAAG-AAC-T-CCCT
*
16553108 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
16553139 TGTTATTATC
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
47 5 0.05
48 10 0.09
49 29 0.27
50 63 0.59
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGATATAAGAACTCCCT
Found at i:16553366 original size:20 final size:20
Alignment explanation
Indices: 16553341--16553389 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
16553331 TGAGTTATTT
16553341 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
16553361 AAGTAA-AAGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
16553381 AAG-AAGCAA
1 AAGTAAGCAA
16553390 AGACCATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:16557188 original size:11 final size:11
Alignment explanation
Indices: 16557172--16557200 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16557162 ATATATACTA
16557172 AATAAAATAAT
1 AATAAAATAAT
16557183 AATAAAATAAT
1 AATAAAATAAT
16557194 AA-AAAAT
1 AATAAAAT
16557201 TATTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:16557711 original size:23 final size:23
Alignment explanation
Indices: 16557680--16557730 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
16557670 ACTTAGTTTC
*
16557680 TTACTGTAGTAATTTTCGAGG-TA
1 TTACAGTAGTAATTTTC-AGGATA
16557703 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
16557726 TTACA
1 TTACA
16557731 TTGTGTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:16559224 original size:14 final size:14
Alignment explanation
Indices: 16559205--16559232 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16559195 GGCCAAGGAA
16559205 GCTTTGGATACCTT
1 GCTTTGGATACCTT
16559219 GCTTTGGATACCTT
1 GCTTTGGATACCTT
16559233 TCACTGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
GCTTTGGATACCTT
Found at i:16561231 original size:14 final size:14
Alignment explanation
Indices: 16561214--16561251 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16561204 ACATCTTTTG
16561214 TTCTCTTTTCCT-C
1 TTCTCTTTTCCTAC
*
16561227 TTTCTTTTTTCCTAC
1 -TTCTCTTTTCCTAC
16561242 TTCTCTTTTC
1 TTCTCTTTTC
16561252 TTTTATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCTCTTTTCCTAC
Found at i:16564956 original size:6 final size:6
Alignment explanation
Indices: 16564945--16564991 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
16564935 GCAGATAGAT
*
16564945 CATTTC CATTTC CATTTC CATCTT- CATTTT CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CAT-TTC CATTTC CATTTC CATTTC CATTT
16564992 TTGGAAACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
5 2 0.05
6 34 0.89
7 2 0.05
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:16564972 original size:24 final size:24
Alignment explanation
Indices: 16564944--16564989 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16564934 TGCAGATAGA
16564944 TCATTTCCATTTCCATTTCCATCT
1 TCATTTCCATTTCCATTTCCATCT
*
16564968 TCATTTTCATTTCCATTTCCAT
1 TCATTTCCATTTCCATTTCCAT
16564990 TTTTGGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.52
Consensus pattern (24 bp):
TCATTTCCATTTCCATTTCCATCT
Found at i:16568636 original size:2 final size:2
Alignment explanation
Indices: 16568631--16569418 Score: 1576
Period size: 2 Copynumber: 394.0 Consensus size: 2
16568621 TATAAAACAC
16568631 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568673 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568715 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568757 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568799 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568841 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568883 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568925 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16568967 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569009 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569051 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569093 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569135 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569177 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569219 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569261 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569303 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569345 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569387 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16569419 TATTATACTC
Statistics
Matches: 786, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 786 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16573097 original size:66 final size:65
Alignment explanation
Indices: 16572986--16573123 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 65
16572976 TCATATTCTG
* * * **
16572986 AAGTTGTAGTTGGAGTTCGTCATATTTTCTGCTTGCCTCTGCTTCTCTCGCTGCTGTCTCCACTT
1 AAGTTGTAGCTGGAGTTCGTCATATTTTCT-CTTGCCTCTACTTCTCTCGATGCTACCTCCACTT
16573051 T
65 T
* * *
16573052 AAGTTGTAGCTGGAGTTCTTCATATTTTCT-TTGAGCTTCTACTTCTCTCGATGCTACCTCCGCT
1 AAGTTGTAGCTGGAGTTCGTCATATTTTCTCTT--GCCTCTACTTCTCTCGATGCTACCTCCACT
16573116 TT
64 TT
16573118 AAGTTG
1 AAGTTG
16573124 AGCATTTGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 2 0.03
66 60 0.97
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (65 bp):
AAGTTGTAGCTGGAGTTCGTCATATTTTCTCTTGCCTCTACTTCTCTCGATGCTACCTCCACTTT
Found at i:16576890 original size:818 final size:818
Alignment explanation
Indices: 16575314--16576946 Score: 2858
Period size: 818 Copynumber: 2.0 Consensus size: 818
16575304 AACCTGAATT
* * *
16575314 CATTAATGAGGAAGGCAATATATCTTTTTACTACTTTATTCAGACCTTGGGAAAGCCATTTAACT
1 CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCAGACCTTGGGAAAACCATTTAACT
*
16575379 TCGTCATTGACGTCCTTTCCACTCCAAACCTATTGAATCGAAAGTAAATTGATTAATTATAAATG
66 TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCGAAAGTAAATTGATTAATTATAAATG
*
16575444 TTATACGAAAACATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCCTAACCATTC
131 TTATACGAAAAAATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCCTAACCATTC
*
16575509 ATGAAAAGATTCTGTGAATAACTTATGAATCTCTCGATGTAGTAATCTTCGGGAGCGTGAACGAG
196 ATGAAAAGATTCTGTGAATAACTTATGAATCTCTCGATGTAGTAATATTCGGGAGCGTGAACGAG
16575574 ATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAAA
261 ATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAAA
*
16575639 AAGATGAATATTTATCAAATTCTAAAACTTACTTGCGTAATTGTTCAACTAAATCGTGGTGAAAA
326 AAGATGAATATTTATCAAATTCTAAAACTTACTTGCGTAATGGTTCAACTAAATCGTGGTGAAAA
* *
16575704 AGAACATATCGATGTGTTTGTACCCAAGATTTATCATCTAAGTGTGCAATTTCAACTTTATCGAT
391 AGAACATATCGATGTGTTTGTACCCAAGATTTATCATCTAAGTGTGAAATTTCAACTTTACCGAT
*
16575769 TGGTTCTCCATAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCGAGCATTTC
456 TGGTTCTCCATAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGCATTTC
*
16575834 TACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGGGCAGAAAGTCATACACTCC
521 TACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACTCC
* * *
16575899 TCTACCAAGTAACCTTCAGTAATTGATCCTTCTAGATAACACTTATTACAACAATAATAATTCAA
586 TCTACCAAGTAACCTTCAGCAATTGATCCTTCTAGATAACACTCATTACAACAATAAGAATTCAA
* * *
16575964 TTTGCATAGGAACCTAAACATGATATACAATATTATCAAAAGTTGTAACTAAAGGTATATTCATG
651 TTTGCATAGGAACCTAAACATAATATACAACATTATCAAAAGTAGTAACTAAAGGTATATTCATG
*
16576029 AATGAATGAAAACTTTACAGATAAATTAGCACATCGATAGAAAACCGATCCACCAAGTTTTGCTT
716 AATGAATGAAAACTTTACAAATAAATTAGCACATCGATAGAAAACCGATCCACCAAGTTTTGCTT
16576094 CATGAGGGAGATAGATTAACAAGTACACCATAATAATC
781 CATGAGGGAGATAGATTAACAAGTACACCATAATAATC
*
16576132 CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCGGACCTTGGGAAAACCATTTAACT
1 CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCAGACCTTGGGAAAACCATTTAACT
16576197 TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCGAAAGTAAATTGATTAATTATAAATG
66 TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCGAAAGTAAATTGATTAATTATAAATG
16576262 TTATACGAAAAAATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTT-TCCTTAACCATT
131 TTATACGAAAAAATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCC-TAACCATT
16576326 CATGAAAAGATTCTGTGAATAACTTATGAATCTCTCGATGTAGTAATATTCGGGAGCGTGAACGA
195 CATGAAAAGATTCTGTGAATAACTTATGAATCTCTCGATGTAGTAATATTCGGGAGCGTGAACGA
* * *
16576391 GATCTCAAGACTTGTTTGTACTCACTTTAAAATGTGGATTACTTGGTTAGAAGATAAAAAATTAA
260 GATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAA
* * * *
16576456 AAAGATGAATATTTATCAAATTTTAAAACTTACTTGTGTAATGGTTCAACTGAATCGTGGTGACA
325 AAAGATGAATATTTATCAAATTCTAAAACTTACTTGCGTAATGGTTCAACTAAATCGTGGTGAAA
16576521 AAGAACATATCGATGT-TCTTGTACCCAAGATTTATCATCTAAGTGTGAAATTTCAACTTTACCG
390 AAGAACATATCGATGTGT-TTGTACCCAAGATTTATCATCTAAGTGTGAAATTTCAACTTTACCG
* *
16576585 ATTGGTTCTCCATAACTTCGAAATAGATAAGTTTTGGCTAAGTTATGATTATTGAACCCAGCATT
454 ATTGGTTCTCCATAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGCATT
16576650 TCTACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACT
519 TCTACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACT
* *
16576715 CCTCTGCCAAGTAACCTTCAGCAATTGATCCTTCTGGATAACACTCATTACAACAATAAGAATTC
584 CCTCTACCAAGTAACCTTCAGCAATTGATCCTTCTAGATAACACTCATTACAACAATAAGAATTC
*
16576780 AATTTGTATAGGAACCTAAACATAATATACAACATTATCAAAAGTAGTAACTAAAGGTATATTCA
649 AATTTGCATAGGAACCTAAACATAATATACAACATTATCAAAAGTAGTAACTAAAGGTATATTCA
* * * *
16576845 TGACTGAATGAAAACTTTACAAATAAATTAGCAC-CCTGGTAGAAAACCGGTCCACCAAGTTTTG
714 TGAATGAATGAAAACTTTACAAATAAATTAGCACATC-GATAGAAAACCGATCCACCAAGTTTTG
* * * * *
16576909 TTTCATGAGGGAGATGGATTAGCAAGTGCGCCATAATA
778 CTTCATGAGGGAGATAGATTAACAAGTACACCATAATA
16576947 GTGAAGAAGG
Statistics
Matches: 772, Mismatches: 40, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
817 5 0.01
818 767 0.99
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (818 bp):
CATTAATGAGGAAGACAATATATCTTTTTACTACTCTATTCAGACCTTGGGAAAACCATTTAACT
TCGTCATTGACATCCTTTCCACTCCAAACCTATTGAATCGAAAGTAAATTGATTAATTATAAATG
TTATACGAAAAAATTATTATTTGTCAATGAAAGCTTCAGTTGCATACCGTTTGTCCTAACCATTC
ATGAAAAGATTCTGTGAATAACTTATGAATCTCTCGATGTAGTAATATTCGGGAGCGTGAACGAG
ATCTCAAGACTTGTTTGTACTCAATTTAAAAAGTGGATTACGTGGTTAGAAGATAAAAAATTAAA
AAGATGAATATTTATCAAATTCTAAAACTTACTTGCGTAATGGTTCAACTAAATCGTGGTGAAAA
AGAACATATCGATGTGTTTGTACCCAAGATTTATCATCTAAGTGTGAAATTTCAACTTTACCGAT
TGGTTCTCCATAACTTCGAAATAGATAAGTTTTGACTAAGTTATGATTAGTGAACCCAGCATTTC
TACTTGCTCTATTCAGTCTTGTTTCAACATCTTCTAAATATCTAGAGCAGAAAGTCATACACTCC
TCTACCAAGTAACCTTCAGCAATTGATCCTTCTAGATAACACTCATTACAACAATAAGAATTCAA
TTTGCATAGGAACCTAAACATAATATACAACATTATCAAAAGTAGTAACTAAAGGTATATTCATG
AATGAATGAAAACTTTACAAATAAATTAGCACATCGATAGAAAACCGATCCACCAAGTTTTGCTT
CATGAGGGAGATAGATTAACAAGTACACCATAATAATC
Found at i:16580042 original size:7 final size:7
Alignment explanation
Indices: 16580025--16580054 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
16580015 AAAATTAATG
16580025 AATTT-A
1 AATTTAA
16580031 AATTTAA
1 AATTTAA
16580038 AATTTAA
1 AATTTAA
16580045 AATTTAA
1 AATTTAA
16580052 AAT
1 AAT
16580055 AACAAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATTTAA
Found at i:16580441 original size:13 final size:14
Alignment explanation
Indices: 16580422--16580455 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
16580412 TAGCTAAATT
16580422 TAAAATTATAAAAA
1 TAAAATTATAAAAA
16580436 -AAAATTATAAAAA
1 TAAAATTATAAAAA
16580449 TAAAATT
1 TAAAATT
16580456 TAACATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATTATAAAAA
Found at i:16580517 original size:13 final size:14
Alignment explanation
Indices: 16580501--16580543 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
16580491 TAAATTTATA
16580501 AAAATTAAAAATT-
1 AAAATTAAAAATTC
16580514 AAAATT-AAAATTC
1 AAAATTAAAAATTC
16580527 AAAATATAAAAAGTTC
1 AAAAT-TAAAAA-TTC
16580543 A
1 A
16580544 TAGAAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 11 0.42
14 1 0.04
15 4 0.15
16 4 0.15
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAATTAAAAATTC
Found at i:16580530 original size:26 final size:26
Alignment explanation
Indices: 16580501--16580575 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
16580491 TAAATTTATA
16580501 AAAATTAAAAATTAAAATTAAAATTC
1 AAAATTAAAAATTAAAATTAAAATTC
*
16580527 AAAATATAAAAAGTT--CA-TAGAAATTC
1 AAAAT-TAAAAA-TTAAAATTA-AAATTC
* *
16580553 AAAA-TATATATTAAAATTAAAAT
1 AAAATTAAAAATTAAAATTAAAAT
16580576 GCATTCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 7 0.18
26 18 0.46
27 6 0.15
28 2 0.05
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAATTAAAAATTAAAATTAAAATTC
Found at i:16583019 original size:18 final size:18
Alignment explanation
Indices: 16582996--16583037 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16582986 CATGCTGAGA
16582996 AAGAAAAGGGAATTAGGG
1 AAGAAAAGGGAATTAGGG
* *
16583014 AAGAAAATGGAATTGGGG
1 AAGAAAAGGGAATTAGGG
*
16583032 GAGAAA
1 AAGAAA
16583038 TAAAACGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (18 bp):
AAGAAAAGGGAATTAGGG
Found at i:16583063 original size:44 final size:44
Alignment explanation
Indices: 16583014--16583115 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 44
16583004 GGAATTAGGG
* *
16583014 AAGAAAATGGAATTGGGGGAGAAATAAAACGGCATCGTTTGCGA
1 AAGAAAATGGAATCGGGGGAGAAATAAAACGGCATCATTTGCGA
* * * * *
16583058 AAGAAAAGGGAATCGGGGGAGACATAAAATGGTATCATTTGTGA
1 AAGAAAATGGAATCGGGGGAGAAATAAAACGGCATCATTTGCGA
16583102 AAGAAAATGGAATC
1 AAGAAAATGGAATC
16583116 AGTTTGTATC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.08, G:0.30, T:0.19
Consensus pattern (44 bp):
AAGAAAATGGAATCGGGGGAGAAATAAAACGGCATCATTTGCGA
Found at i:16583131 original size:23 final size:22
Alignment explanation
Indices: 16583078--16583131 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
16583068 AATCGGGGGA
*
16583078 GACATAAAATGGTATCATTTGT
1 GACATAAAATGGAATCATTTGT
* *
16583100 GAAAGAAAATGGAATCAGTTTGT
1 GACATAAAATGGAATCA-TTTGT
16583123 -ATCATAAAA
1 GA-CATAAAA
16583132 ATGGCGCCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (22 bp):
GACATAAAATGGAATCATTTGT
Found at i:16583220 original size:41 final size:41
Alignment explanation
Indices: 16583175--16583346 Score: 186
Period size: 41 Copynumber: 4.2 Consensus size: 41
16583165 GACGTTTTCT
*
16583175 TTACCTTTTACGGCGTTTATGGGGAAAACGCCGCTATTGCC
1 TTACCTTTTACGGCGTTTATGGGGAAAACACCGCTATTGCC
* **
16583216 TTACCTTTTACGGTGTTTATGGGGAAAACATTGCTATTGCC
1 TTACCTTTTACGGCGTTTATGGGGAAAACACCGCTATTGCC
* * * * * *
16583257 TTACCTTTTGCAGCGTTTATAGGAAAAACATCGCTACTGCC
1 TTACCTTTTACGGCGTTTATGGGGAAAACACCGCTATTGCC
** * **
16583298 TTACCTTTTGTGGTGTTTAT-GGGAGAAATGCCGCTATTGCC
1 TTACCTTTTACGGCGTTTATGGGGA-AAACACCGCTATTGCC
16583339 -TACCTTTT
1 TTACCTTTT
16583347 GCCGCTTTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
40 11 0.10
41 100 0.90
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (41 bp):
TTACCTTTTACGGCGTTTATGGGGAAAACACCGCTATTGCC
Found at i:16583334 original size:82 final size:81
Alignment explanation
Indices: 16583175--16583348 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 81
16583165 GACGTTTTCT
* * * * * *
16583175 TTACCTTTTACGGCGTTTATGGGGAAAACGCCGCTATTGCCTTACCTTTTACGGTGTTTATGGGG
1 TTACCTTTTGCAGCGTTTATAGGAAAAACACCGCTACTGCCTTACCTTTTACGGTGTTTATGGGG
*
16583240 AAAACATTGCTATTGCC
66 AAAACA-CGCTATTGCC
* **
16583257 TTACCTTTTGCAGCGTTTATAGGAAAAACATCGCTACTGCCTTACCTTTTGTGGTGTTTATGGGA
1 TTACCTTTTGCAGCGTTTATAGGAAAAACACCGCTACTGCCTTACCTTTTACGGTGTTTATGGG-
*
16583322 GAAATGC-CGCTATTGCC
65 GAAA-ACACGCTATTGCC
16583339 -TACCTTTTGC
1 TTACCTTTTGC
16583349 CGCTTTTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 10 0.13
82 64 0.81
83 4 0.05
84 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (81 bp):
TTACCTTTTGCAGCGTTTATAGGAAAAACACCGCTACTGCCTTACCTTTTACGGTGTTTATGGGG
AAAACACGCTATTGCC
Found at i:16583634 original size:40 final size:41
Alignment explanation
Indices: 16583513--16583635 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
16583503 CTAGCATTTA
* * *
16583513 TGGGAAAAACGCCACTATTGCCTTACCTTTTACAGCGTTTA
1 TGGGAGAAACGCCGCTATTGCCTTACCTTTTACAGCGTTTT
** ** *
16583554 T-GGAGAAAACATCGCTATTGCCTTACCTTTTATGGTGTTTT
1 TGGGAG-AAACGCCGCTATTGCCTTACCTTTTACAGCGTTTT
* *
16583595 TGGGAGAAACGCCGCTATTGCC-TACCTTTTGCCGCGTTTT
1 TGGGAGAAACGCCGCTATTGCCTTACCTTTTACAGCGTTTT
16583635 T
1 T
16583636 AAGAAAAACT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
40 18 0.27
41 44 0.67
42 4 0.06
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (41 bp):
TGGGAGAAACGCCGCTATTGCCTTACCTTTTACAGCGTTTT
Found at i:16583678 original size:59 final size:59
Alignment explanation
Indices: 16583586--16583702 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
16583576 TTACCTTTTA
*
16583586 TGGTGTTTTTGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTTAAGAAAAAC
1 TGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTTAAGAAAAAC
* *
16583645 TGGTGTTTATGGGAGAAATGCCGCTATTGCCTACCTTTTGCCGCTTTTTTAAGAAAAA
1 TGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTTAAGAAAAA
16583703 TGCCACTAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (59 bp):
TGGTGTTTATGGGAGAAACGCCGCTATTGCCTACCTTTTGCCGCGTTTTTAAGAAAAAC
Found at i:16590878 original size:23 final size:23
Alignment explanation
Indices: 16590843--16590887 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16590833 TGGAGTATAA
* *
16590843 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
16590866 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
16590888 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:16597894 original size:41 final size:41
Alignment explanation
Indices: 16597849--16597926 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
16597839 TCAGGTTTAT
16597849 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
16597890 GCCGGTGAAACATTTCAGACTTTATGTCTAGCAGGCT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCT
16597927 AAGTACCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (41 bp):
GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
Found at i:16598424 original size:39 final size:39
Alignment explanation
Indices: 16598370--16598447 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
16598360 TATGTAAGCT
16598370 TACTTTGTTTGTTTACGTCTATCTGTTTTATAGAT-AAAA
1 TACTTTGTTTGTTTACGTCTATCTG-TTTATAGATCAAAA
16598409 TACTTTGTTTGTTTACGTCTATCTGTTTATAGATCAAAA
1 TACTTTGTTTGTTTACGTCTATCTGTTTATAGATCAAAA
16598448 AAAATCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 9 0.24
39 29 0.76
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.50
Consensus pattern (39 bp):
TACTTTGTTTGTTTACGTCTATCTGTTTATAGATCAAAA
Found at i:16598758 original size:61 final size:61
Alignment explanation
Indices: 16598681--16598811 Score: 239
Period size: 61 Copynumber: 2.2 Consensus size: 61
16598671 TAATGTCTTT
16598681 GTTTATTA-A-AAATGGTTAGAAGAGAAGTTTAACATTTTGCATATTTAATATTAGACTAA
1 GTTTATTATATAAATGGTTAGAAGAGAAGTTTAACATTTTGCATATTTAATATTAGACTAA
*
16598740 TTTTATTATATAAATGGTTAGAAGAGAAGTTTAACATTTTGCATATTTAATATTAGACTAA
1 GTTTATTATATAAATGGTTAGAAGAGAAGTTTAACATTTTGCATATTTAATATTAGACTAA
16598801 GTTTATTATAT
1 GTTTATTATAT
16598812 TTAAATAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 7 0.10
60 1 0.01
61 60 0.88
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (61 bp):
GTTTATTATATAAATGGTTAGAAGAGAAGTTTAACATTTTGCATATTTAATATTAGACTAA
Found at i:16601682 original size:65 final size:65
Alignment explanation
Indices: 16601533--16601682 Score: 246
Period size: 65 Copynumber: 2.3 Consensus size: 65
16601523 GGACTACCGT
*
16601533 AGCTCTTTGTGAGCGTCCTATTTTATGATCGGTTATGATCCTGCATATATTACAGACACAAATGA
1 AGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTATGATCCTGCATATATTACAGACACAAATGA
* * * * *
16601598 AACTCTTTGTGAGCGTCCTGTTTTATGATCGGTTGTGATCCTGCATATGTTGCAGACACAAATGC
1 AGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTATGATCCTGCATATATTACAGACACAAATGA
16601663 AGCTCTTTGTGAGCGTCCTG
1 AGCTCTTTGTGAGCGTCCTG
16601683 ATATGGCTCG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 78 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (65 bp):
AGCTCTTTGTGAGCGTCCTGTTTTATGATCGGTTATGATCCTGCATATATTACAGACACAAATGA
Found at i:16601883 original size:24 final size:25
Alignment explanation
Indices: 16601835--16601883 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16601825 CTTCTTGAAA
16601835 GGCTCCTTATGAGCTTTCCTATTAT
1 GGCTCCTTATGAGCTTTCCTATTAT
* * *
16601860 GGCTCTTTGTGAGC-TTCCTGTTAT
1 GGCTCCTTATGAGCTTTCCTATTAT
16601884 CTGGCTCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.45
Consensus pattern (25 bp):
GGCTCCTTATGAGCTTTCCTATTAT
Found at i:16603171 original size:44 final size:43
Alignment explanation
Indices: 16603095--16603286 Score: 206
Period size: 44 Copynumber: 4.4 Consensus size: 43
16603085 TCTAATTTAC
* * * * *
16603095 TCCAATGTATATAATTTATATTACAAAGTTTGTTCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGACAAA-TTGGTTCCAAGTTTGT
* * * *
16603139 TCCAATGAATCTAATTGAAATGAAAAATTTTGTTTCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGACAAA-TTGGTTCCAAGTTTGT
* *
16603183 TCTAATTAATCTAATTTAAA-GTACAAAGTTGGTTCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATG-ACAAA-TTGGTTCCAAGTTTGT
* * *
16603227 TACAATGAATCTAATTTAAATTACAAATTGGTTCCAAGTTTGG
1 TCCAATGAATCTAATTTAAATGACAAATTGGTTCCAAGTTTGT
*
16603270 TGCAATGAATCTAATTT
1 TCCAATGAATCTAATTT
16603287 TTACGGGTAT
Statistics
Matches: 125, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
43 32 0.26
44 93 0.74
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (43 bp):
TCCAATGAATCTAATTTAAATGACAAATTGGTTCCAAGTTTGT
Found at i:16603255 original size:88 final size:87
Alignment explanation
Indices: 16603097--16603286 Score: 238
Period size: 88 Copynumber: 2.2 Consensus size: 87
16603087 TAATTTACTC
* * * * * *
16603097 CAATGTATATAATTTATATTACAAAGTTTGTTCCAAGTTTGTTCCAATGAATCTAATTGAAATGA
1 CAATGAATCTAATTTAAAGTACAAAGTTGGTTCCAAGTTTGTTACAATGAATCTAATTGAAATGA
* * *
16603162 AAAATTTTGTTTCAAGTTT-GTT
66 AAAA-TTGGTTCCAAGTTTGGTG
* * *
16603184 CTAATTAATCTAATTTAAAGTACAAAGTTGGTTCCAAGTTTGTTACAATGAATCTAATTTAAATT
1 C-AATGAATCTAATTTAAAGTACAAAGTTGGTTCCAAGTTTGTTACAATGAATCTAATTGAAATG
*
16603249 ACAAATTGGTTCCAAGTTTGGTG
65 AAAAATTGGTTCCAAGTTTGGTG
16603272 CAATGAATCTAATTT
1 CAATGAATCTAATTT
16603287 TTACGGGTAT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 26 0.30
88 61 0.70
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (87 bp):
CAATGAATCTAATTTAAAGTACAAAGTTGGTTCCAAGTTTGTTACAATGAATCTAATTGAAATGA
AAAATTGGTTCCAAGTTTGGTG
Found at i:16605970 original size:16 final size:17
Alignment explanation
Indices: 16605928--16605971 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
16605918 ACAAGAAATG
16605928 AATATGAG--ATGAGAA
1 AATATGAGAAATGAGAA
*
16605943 AATAT-TGAAATG-GAA
1 AATATGAGAAATGAGAA
16605958 AATATGAGAAATGA
1 AATATGAGAAATGA
16605972 TTACGAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AATATGAGAAATGAGAA
Found at i:16614473 original size:108 final size:108
Alignment explanation
Indices: 16614284--16614478 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 108
16614274 TAAACAAAAA
* * *
16614284 AAATTAGGAATGTGTTGGGCTGAGTAACCGGGGTGGGGTACTTGGCTGTCATCTCTCTTCGCGTC
1 AAATTAGGAATATGTTGGGCTGAGTAACCGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCATC
16614349 AAAAGGTTCAATATATTCTTAAAAATATATATATAAATATAAT
66 AAAAGGTTCAATATATTCTTAAAAATATATATATAAATATAAT
* * * *
16614392 AAATTAGGAGTATGTTGGGCTGAGTAACCGAGTTGGGGTGCTTGGTTGTCATCTCTCTTCGCATC
1 AAATTAGGAATATGTTGGGCTGAGTAACCGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCATC
16614457 AAAAGGTTCAATATATTCTTAA
66 AAAAGGTTCAATATATTCTTAA
16614479 GCAAAGAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (108 bp):
AAATTAGGAATATGTTGGGCTGAGTAACCGAGGTGGGGTACTTGGCTGTCATCTCTCTTCGCATC
AAAAGGTTCAATATATTCTTAAAAATATATATATAAATATAAT
Found at i:16620385 original size:23 final size:24
Alignment explanation
Indices: 16620355--16620407 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
16620345 AAAGAATCAT
*
16620355 TATTTATAT-TTATATTATTAAAA
1 TATTTATATCTTATATTATAAAAA
16620378 TATTTATATCTTATATTATAAAAA
1 TATTTATATCTTATATTATAAAAA
16620402 TATTTA
1 TATTTA
16620408 ATACTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTATATCTTATATTATAAAAA
Found at i:16622334 original size:21 final size:21
Alignment explanation
Indices: 16622308--16622352 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
16622298 GCCACCACAC
16622308 CTCTAATCTTGTTTTCTCTTT
1 CTCTAATCTTGTTTTCTCTTT
16622329 CTCTAATCTTGTTTTCTCTTT
1 CTCTAATCTTGTTTTCTCTTT
16622350 CTC
1 CTC
16622353 GTTTGATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.27, G:0.04, T:0.60
Consensus pattern (21 bp):
CTCTAATCTTGTTTTCTCTTT
Found at i:16629800 original size:105 final size:105
Alignment explanation
Indices: 16629569--16629940 Score: 533
Period size: 103 Copynumber: 3.6 Consensus size: 105
16629559 ATTACATATA
** *
16629569 GAGGGGTTGCTAAGTGCTGATTCCCCTACTT-ATTGGTGGTTGCTAAGTGC-TGAGTCCACCGTA
1 GAGGGGTTGCTAAGTGCTGATTCCCC-GGTTCATTGGTGG-TGCTAAGTGCGTGA-TCCACCATA
* *
16629632 T-TTTTAAATGTG-AAAGGGGGTTGCTATGTGCTAATTCCCCC
63 TCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
16629673 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTATGTGCGTGATCCACCATATCT
1 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCT
16629738 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
16629778 GAGGAGTTGCTAAGTGCAGATTCCCGGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATC
1 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATC
16629842 TTTGAAA--TGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
16629881 GAGGGGTTGCTAAGTGTTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGTGATCCACCA
16629941 ATAACGGTTA
Statistics
Matches: 243, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
103 103 0.42
104 47 0.19
105 92 0.38
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCT
TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:16645308 original size:22 final size:21
Alignment explanation
Indices: 16645283--16645326 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
16645273 TGATAAACTT
16645283 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
16645305 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
16645326 T
1 T
16645327 CAACTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:16655418 original size:28 final size:28
Alignment explanation
Indices: 16655360--16655470 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 28
16655350 CACATATCAT
*
16655360 ATATCACTAAGCA-CAAAGTGC-AAAT-
1 ATATCAATAAGCACCAAAGTGCAAAATA
16655385 A-A-CAATAAGCACCAAAGTGCAAAATA
1 ATATCAATAAGCACCAAAGTGCAAAATA
* * *
16655411 ATATCAATAAGCACTAAAGTGCAAATTTT
1 ATATCAATAAGCACCAAAGTGCAAA-ATA
* * * *
16655440 ACAACGATAAGCACCAAAGTGCGAAATA
1 ATATCAATAAGCACCAAAGTGCAAAATA
16655468 ATA
1 ATA
16655471 CGATAAACAT
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
23 8 0.12
24 9 0.13
25 5 0.07
26 1 0.01
27 1 0.01
28 23 0.34
29 21 0.31
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.19
Consensus pattern (28 bp):
ATATCAATAAGCACCAAAGTGCAAAATA
Found at i:16656742 original size:60 final size:60
Alignment explanation
Indices: 16656573--16656744 Score: 192
Period size: 60 Copynumber: 2.9 Consensus size: 60
16656563 TTTTTATAAT
* * *
16656573 ATTATATATTATGAGTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAA
1 ATTATATATTATTA-TTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATATGATTAA
* * *
16656636 A-T-TGTA-TATTATTTTATTAAATTTTATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTATATATTATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAA
* *
16656693 ATTATTTATTATTATTTTATTAAAATATATTTAATAATAATCT-TATTAAAAT
1 ATTATATATTATTATTTTATTAAATTATATTTAATAATAAT-TATATTAAAAT
16656745 TTAATAATGA
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
57 10 0.11
58 20 0.21
59 12 0.13
60 46 0.49
61 4 0.04
62 1 0.01
63 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (60 bp):
ATTATATATTATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAA
Found at i:16656758 original size:25 final size:26
Alignment explanation
Indices: 16656709--16656759 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16656699 TATTATTATT
*
16656709 TTATTAAAATATATTTAATAATAATC
1 TTATTAAAATATATATAATAATAATC
* *
16656735 TTATTAAAATTTA-ATAATGATAATC
1 TTATTAAAATATATATAATAATAATC
16656760 ATCTACTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
TTATTAAAATATATATAATAATAATC
Found at i:16658997 original size:16 final size:16
Alignment explanation
Indices: 16658976--16659006 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16658966 AATTTAATTA
16658976 AATTAATTAATTTTCC
1 AATTAATTAATTTTCC
16658992 AATTAATTAATTTTC
1 AATTAATTAATTTTC
16659007 TCAACCCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTAATTTTCC
Found at i:16663820 original size:24 final size:24
Alignment explanation
Indices: 16663786--16663837 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16663776 TTTCTAGAAG
* **
16663786 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
16663810 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
16663834 ATTT
1 ATTT
16663838 GAATTTGATT
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:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:16663848 original size:24 final size:24
Alignment explanation
Indices: 16663803--16663848 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16663793 ATTTATGAGT
*
16663803 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAGAATTTATTAAC
16663827 ATAATATATTT-GAATTTGATTA
1 ATAATATATTTAGAATTT-ATTA
16663849 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAGAATTTATTAAC
Found at i:16669448 original size:3 final size:3
Alignment explanation
Indices: 16669430--16669470 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
16669420 TCATCAATTC
*
16669430 TCT TAT TCT CTCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
16669471 TTTTCTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:16678353 original size:24 final size:24
Alignment explanation
Indices: 16678319--16678370 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16678309 TTTCTAGAAG
* * *
16678319 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCACAATAT
*
16678343 ATTTAGCATTTATTAGCACAATAT
1 ATTTAGCATTTATGAGCACAATAT
16678367 ATTT
1 ATTT
16678371 GACTTTGATT
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:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCACAATAT
Found at i:16682085 original size:20 final size:20
Alignment explanation
Indices: 16682038--16682091 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
16682028 TTTATGCTAG
* * *
16682038 GTAAATGAAATGGAAAGTAA
1 GTAAATGGAATGGTAAGAAA
16682058 GTAAATGGAATGGTAAGAAA
1 GTAAATGGAATGGTAAGAAA
*
16682078 GTAAATGGAGTGGT
1 GTAAATGGAATGGT
16682092 TCATAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.22
Consensus pattern (20 bp):
GTAAATGGAATGGTAAGAAA
Found at i:16685084 original size:11 final size:13
Alignment explanation
Indices: 16685064--16685095 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16685054 AATAAATTAA
16685064 TAAAATATCAT-T
1 TAAAATATCATAT
16685076 TAAAA-ATCATAT
1 TAAAATATCATAT
16685088 TAAAATAT
1 TAAAATAT
16685096 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:16687778 original size:44 final size:44
Alignment explanation
Indices: 16687439--16687780 Score: 429
Period size: 44 Copynumber: 7.8 Consensus size: 44
16687429 GTAATTTTTG
* *
16687439 ACCTATTCTACTGCT-GTCCAGGGAGATAGGA-TCTACAGTCTTCC
1 ACCTATTCCACTGCTGGT-CAGGGAGATAGGACT-TACAATCTTCC
* * *
16687483 ACCTATTCCACTGCTAGTCAGGGAGTTAGGACTTACAATCTTTC
1 ACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCC
* * * ** *
16687527 GCCTATTCCACTGCTGTTCAGGGAGCTAGGTTTTACAATCTTTC
1 ACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCC
* * *
16687571 GCCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCC
* * * *
16687615 ACCTATTTCACTACTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCC
*
16687659 ACCTATTCCACTGCTGGTCAGGGAGATAAGG-CTTACAATCTTCA
1 ACCTATTCCACTGCTGGTCAGGGAGAT-AGGACTTACAATCTTCC
* *
16687703 ACATATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCA
1 ACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCC
* *
16687747 ACCTATTTCACTGCTGGTCAAGGAGATAGGACTT
1 ACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
16687781 TGTGATTTCA
Statistics
Matches: 269, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
43 3 0.01
44 260 0.97
45 6 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCC
Found at i:16699168 original size:46 final size:46
Alignment explanation
Indices: 16699101--16699313 Score: 385
Period size: 46 Copynumber: 4.7 Consensus size: 46
16699091 TTTGAGTACT
16699101 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
16699147 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
16699191 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
16699237 TCTGATCAAGTAACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
16699283 TCTGATCAAGTGACAAAGTGATAAGTGGTAG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG
16699314 TGTAACAGCC
Statistics
Matches: 159, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
44 43 0.27
46 116 0.73
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:16699254 original size:90 final size:91
Alignment explanation
Indices: 16699101--16699313 Score: 383
Period size: 90 Copynumber: 2.3 Consensus size: 91
16699091 TTTGAGTACT
* *
16699101 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAACAAAGT
*
16699166 GATAAGTGGTAGCTTTAGCT-ACTTA
66 GATAAGTGATAGCTTTAGCTAACTTA
16699191 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAACAAAGT
16699256 GATAAGTGATAGCTTTAGCTACACTTA
66 GATAAGTGATAGCTTTAGCTA-ACTTA
16699283 TCTGATCAAGTGACAAAGTGATAAGTGGTAG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG
16699314 TGTAACAGCC
Statistics
Matches: 118, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
90 82 0.69
92 36 0.31
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAACAAAGT
GATAAGTGATAGCTTTAGCTAACTTA
Found at i:16706163 original size:433 final size:433
Alignment explanation
Indices: 16705357--16706234 Score: 1623
Period size: 433 Copynumber: 2.0 Consensus size: 433
16705347 TATATACAGA
*
16705357 CGAATTTGAAATAGATTTAAAGGAAGATAAAAAGAAATACTATATGAAATTATAATATTAAAATG
1 CGAATTTGAAATAGATGTAAAGGAAGATAAAAAGAAATACTATATGAAATTATAATATTAAAATG
*
16705422 AATTTCGAAGTAAATAAAAATATATGTGTAATATACCAAATAATATACATTCATTAATCTAAATA
66 AATTTCGAAGTAAATAAAAATATATGTGTAATATACCAAATAATATACATACATTAATCTAAATA
16705487 AGTAACGTATATGAAATGAAAAGTTTAATGATAATACGAATGATACTAGAATTAATAAATAATAA
131 AGTAACGTATATGAAATGAAAAGTTTAATGATAATACGAATGATACTAGAATTAATAAATAATAA
16705552 TGATATTATTACTAAATTAATTGATAAAAAATACAAAAGGGATTAAATTAAATTAAAAACAGAAT
196 TGATATTATTACTAAATTAATTGATAAAAAATACAAAAGGGATTAAATTAAATTAAAAACAGAAT
16705617 TAAAAGAACCAAATGAAAATAAAATAAAGTAAAGGGGCCAAATGTAATGCGCGGATTACTTGGGG
261 TAAAAGAACCAAATGAAAATAAAATAAAGTAAAGGGGCCAAATGTAATGCGCGGATTACTTGGGG
*
16705682 GACCAAGCGGGAAATATTCCCCGCCCCTCCAAAACGCAGCATCTAATCTAGGCCCAGATGAAATC
326 GACCAAGCGGGAAATAATCCCCGCCCCTCCAAAACGCAGCATCTAATCTAGGCCCAGATGAAATC
16705747 AATGACAAACTGTATTGCTCAAAATTAAAGAAATTCAAAAGAC
391 AATGACAAACTGTATTGCTCAAAATTAAAGAAATTCAAAAGAC
*
16705790 CGAATTTGAAATAGATGTAAAGGAAGATAAAAAGAAATACTATGTGAAATTATAATATTAAAATG
1 CGAATTTGAAATAGATGTAAAGGAAGATAAAAAGAAATACTATATGAAATTATAATATTAAAATG
16705855 AATTTCGAAGTAAATAAAAATATATGTGTAATATACCAAATAATATACATACATTAATCTAAATA
66 AATTTCGAAGTAAATAAAAATATATGTGTAATATACCAAATAATATACATACATTAATCTAAATA
*
16705920 AGTAATGTATATGAAATGAAAAGTTTAATGATAATACGAATGATACTAGAATTAATAAATAATAA
131 AGTAACGTATATGAAATGAAAAGTTTAATGATAATACGAATGATACTAGAATTAATAAATAATAA
16705985 TGATATTATTACTAAATTAATTGATAAAAAATACAAAAGGGATTAAATTAAATTAAAAACAGAAT
196 TGATATTATTACTAAATTAATTGATAAAAAATACAAAAGGGATTAAATTAAATTAAAAACAGAAT
* * *
16706050 TAAAAGAACCAAATGAAAATAAAATAAAGTAAATGGGTCGAATGTAATGCGCGGATTACTTGGGG
261 TAAAAGAACCAAATGAAAATAAAATAAAGTAAAGGGGCCAAATGTAATGCGCGGATTACTTGGGG
* * *
16706115 GACCAAGCGGGAAATAATCCCCGCCCCTCTAAAACGCGGCATCTAATCTGGGCCCAGATGAAATC
326 GACCAAGCGGGAAATAATCCCCGCCCCTCCAAAACGCAGCATCTAATCTAGGCCCAGATGAAATC
* *
16706180 AATGACAAATTGTATTGCTTAAAATTAAAGAAATTCAAAAGAC
391 AATGACAAACTGTATTGCTCAAAATTAAAGAAATTCAAAAGAC
*
16706223 C-AAATTGAAATA
1 CGAATTTGAAATA
16706235 CAACACAAAA
Statistics
Matches: 431, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
432 10 0.02
433 421 0.98
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (433 bp):
CGAATTTGAAATAGATGTAAAGGAAGATAAAAAGAAATACTATATGAAATTATAATATTAAAATG
AATTTCGAAGTAAATAAAAATATATGTGTAATATACCAAATAATATACATACATTAATCTAAATA
AGTAACGTATATGAAATGAAAAGTTTAATGATAATACGAATGATACTAGAATTAATAAATAATAA
TGATATTATTACTAAATTAATTGATAAAAAATACAAAAGGGATTAAATTAAATTAAAAACAGAAT
TAAAAGAACCAAATGAAAATAAAATAAAGTAAAGGGGCCAAATGTAATGCGCGGATTACTTGGGG
GACCAAGCGGGAAATAATCCCCGCCCCTCCAAAACGCAGCATCTAATCTAGGCCCAGATGAAATC
AATGACAAACTGTATTGCTCAAAATTAAAGAAATTCAAAAGAC
Found at i:16716184 original size:21 final size:23
Alignment explanation
Indices: 16716159--16716204 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
16716149 TATACTAAAT
*
16716159 AAAAT-AA-TAAAATATTATTAA
1 AAAATAAATTAAAATATTAATAA
16716180 AAAATCAAATTAAAATATTAATAA
1 AAAAT-AAATTAAAATATTAATAA
16716204 A
1 A
16716205 TTAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
23 2 0.10
24 14 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAAATTAAAATATTAATAA
Found at i:16725544 original size:18 final size:18
Alignment explanation
Indices: 16725521--16725557 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16725511 TTAAACACGG
16725521 GAAAGTAAAGAAAGTTGA
1 GAAAGTAAAGAAAGTTGA
16725539 GAAAGTAAAGAAAGTTGA
1 GAAAGTAAAGAAAGTTGA
16725557 G
1 G
16725558 TATCCATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.30, T:0.16
Consensus pattern (18 bp):
GAAAGTAAAGAAAGTTGA
Found at i:16738121 original size:25 final size:24
Alignment explanation
Indices: 16738087--16738136 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
16738077 ATTAAATTGA
* *
16738087 TTTTTTTAATATTAATATAGATAT
1 TTTTTTTAATATCAATATAAATAT
16738111 TTTTATTTAATATCAATATAAATAT
1 TTTT-TTTAATATCAATATAAATAT
16738136 T
1 T
16738137 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTTTTAATATCAATATAAATAT
Found at i:16738900 original size:49 final size:48
Alignment explanation
Indices: 16738754--16738901 Score: 122
Period size: 52 Copynumber: 3.0 Consensus size: 48
16738744 TGTTATAATT
* * * *
16738754 ATTTT-TCTCTAATTAATTTAAATTAATTAAGAGATAAATAATAAAATTTT
1 ATTTTATCTCTAATTAA-TTAAAATAA-TAATAGATAAATAAT-AAATATG
* * * *
16738804 ATATTATCACTAATTAA--AAAATAAAATAATTATGTTATAATATTAAATGATG
1 ATTTTATCTCTAATTAATTAAAAT--AATAA-TA-GATA-AATAATAAAT-ATG
16738856 ATTTTATCTCTAATTAATTAAAATAATAATAGATAAATAATAAATA
1 ATTTTATCTCTAATTAATTAAAATAATAATAGATAAATAATAAATA
16738902 AAAAAGTTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
48 5 0.06
49 12 0.16
50 10 0.13
51 19 0.25
52 26 0.34
54 5 0.06
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (48 bp):
ATTTTATCTCTAATTAATTAAAATAATAATAGATAAATAATAAATATG
Found at i:16742041 original size:3 final size:3
Alignment explanation
Indices: 16742033--16742081 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
16742023 TGATTCACCG
* * *
16742033 TCA TCA TCA -CTA TCA TCA TCG TCG TCG TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TC-A TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
16742078 TCA T
1 TCA T
16742082 TTTCTCGACC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:16743277 original size:377 final size:376
Alignment explanation
Indices: 16742584--16743335 Score: 1405
Period size: 377 Copynumber: 2.0 Consensus size: 376
16742574 CCATTTGGAG
16742584 GGTGCGGAAATTTGTATTTTGGATCTCGAATTGCATCAAGAAATATTCTAGTGTCATGTGCCGAT
1 GGTGCGGAAATTTGTATTTTGGATCTCGAATTGCATCAAGAAATATTCTAGTGTCATGTGCCGAT
16742649 CCTTCCCATCCAGCCATGACAAAGGTGAAACACATATTAAAATCACATACTGCCATAACATTTTG
66 CCTTCCCATCCAGCCATGACAAAGGTGAAACACATATTAAAATCACATACTGCCATAACATTTTG
* **
16742714 AGTTGGGATACCTTTTCTTCCAATATAGGGAATTTGTTCATTTGGTGGAAGAATAGCCGCAATGT
131 AGTCGGGATACCTTTTCTTCCAATATAACGAATTTGTTCATTTGGTGGAAGAATAGCCGCAATGT
*
16742779 GAGTACCATCAATTGCACCTATGCAATCCTGAACAAATAATCATATTAATCTCGTGCATATTTTT
196 GAGTACCATCAATTGCACCTATGCAATACTGAACAAATAATCATATTAATCTCGTGCATATTTTT
*
16742844 AGTCGACCAAATATATTAAAATATAATAATATAAAATTAAATTTTAACCTTAAAATGTGACATAT
261 AGTCGACCAAATATATTAAAATATAATAATATAAAATTAAATTTTAACCTTAAAATGCGACATAT
16742909 ATCTAGAATCATTACGTATTTGTTCAGGTATTGAGCTAAAAAAAGGATCTA
326 ATCTAGAATCATTACGTATTTGTTCAGGTATTGAGCTAAAAAAAGGATCTA
*
16742960 GGTGCGGAAATTTGTATTTTGGATCTCGAATTGCTTCAAGAAATATTCTAGTGTCATGTGCCGAT
1 GGTGCGGAAATTTGTATTTTGGATCTCGAATTGCATCAAGAAATATTCTAGTGTCATGTGCCGAT
*
16743025 CCTTCCCATCCAGCCATGACAAATGTGAAACACATATTAAAATCACATACTGCCATAACATTTTG
66 CCTTCCCATCCAGCCATGACAAAGGTGAAACACATATTAAAATCACATACTGCCATAACATTTTG
16743090 AGTCGGGATACCTTTTTCTTCCAATATAACGAATTTGTTCATTTGGTGGAAGAATAGCCGCAATG
131 AGTCGGGATACC-TTTTCTTCCAATATAACGAATTTGTTCATTTGGTGGAAGAATAGCCGCAATG
*
16743155 TGAGTACCATCAATTGCACCTATGCAATATTGAACAAATAATCATATTAATCTCGTGCATATTTT
195 TGAGTACCATCAATTGCACCTATGCAATACTGAACAAATAATCATATTAATCTCGTGCATATTTT
*
16743220 TAGTCGACCAAATATATTAAAATATAATAATATAAAATTAAATTTTAACCTTAAAATGCGGCATA
260 TAGTCGACCAAATATATTAAAATATAATAATATAAAATTAAATTTTAACCTTAAAATGCGACATA
*
16743285 TATCTAGAATCATTACGTATTTGTTCGGGTATTGAGCTAAAAAAAGGATCT
325 TATCTAGAATCATTACGTATTTGTTCAGGTATTGAGCTAAAAAAAGGATCT
16743336 TCGGGTGCAA
Statistics
Matches: 365, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
376 139 0.38
377 226 0.62
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (376 bp):
GGTGCGGAAATTTGTATTTTGGATCTCGAATTGCATCAAGAAATATTCTAGTGTCATGTGCCGAT
CCTTCCCATCCAGCCATGACAAAGGTGAAACACATATTAAAATCACATACTGCCATAACATTTTG
AGTCGGGATACCTTTTCTTCCAATATAACGAATTTGTTCATTTGGTGGAAGAATAGCCGCAATGT
GAGTACCATCAATTGCACCTATGCAATACTGAACAAATAATCATATTAATCTCGTGCATATTTTT
AGTCGACCAAATATATTAAAATATAATAATATAAAATTAAATTTTAACCTTAAAATGCGACATAT
ATCTAGAATCATTACGTATTTGTTCAGGTATTGAGCTAAAAAAAGGATCTA
Found at i:16743936 original size:72 final size:73
Alignment explanation
Indices: 16743846--16744020 Score: 239
Period size: 72 Copynumber: 2.4 Consensus size: 73
16743836 AAAATCACAT
* * *
16743846 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
16743910 GACCAAAC
66 AACCAAAC
* * *
16743918 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
16743981 AAACCAAAC
65 AAACCAAAC
* *
16743990 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
16744021 TTGTTGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.01
72 84 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:16744465 original size:18 final size:18
Alignment explanation
Indices: 16744444--16744509 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
16744434 TCCATCAATT
16744444 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
16744462 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
16744480 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
16744498 TGAACATCATTT
1 TGAACATCATTT
16744510 CTCATATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:16748573 original size:19 final size:19
Alignment explanation
Indices: 16748549--16748631 Score: 85
Period size: 19 Copynumber: 4.1 Consensus size: 19
16748539 GTGGTGGAGA
*
16748549 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
16748568 AGAGGAACAAAGAACCAGTACAAGC
1 AGAGGAACAAAGAA-C----C-AGC
*
16748593 AGAGGAACAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
*
16748612 AGAGGAAGAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
16748631 A
1 A
16748632 CCAGCAGAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
19 34 0.63
20 2 0.04
24 2 0.04
25 16 0.30
ACGTcount: A:0.52, C:0.20, G:0.25, T:0.02
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:16748593 original size:25 final size:25
Alignment explanation
Indices: 16748559--16748681 Score: 141
Period size: 25 Copynumber: 5.2 Consensus size: 25
16748549 AGAGGAACAA
16748559 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* * *
16748584 AGTACAAGCAGAGGAAC--A-AA-T
1 AGCACCAGCAGAGGAACAAAGAACC
*
16748605 A--ACCAGCAGAGGAAGAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
16748628 AGCACCAGCAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
16748653 AGCACCAGCAGAGGATCAAAGAAGC
1 AGCACCAGCAGAGGAACAAAGAACC
16748678 AGCA
1 AGCA
16748682 GATGAACAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
19 12 0.15
21 2 0.02
22 4 0.05
23 2 0.02
25 61 0.75
ACGTcount: A:0.50, C:0.24, G:0.24, T:0.02
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:16748600 original size:44 final size:44
Alignment explanation
Indices: 16748549--16748656 Score: 162
Period size: 44 Copynumber: 2.5 Consensus size: 44
16748539 GTGGTGGAGA
* *
16748549 AGAGGAACAAAGCACCAGCAGAGGAACAAAGAACCAGTACAAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACAAGC
* * *
16748593 AGAGGAACAAATAACCAGCAGAGGAAGAAAGAACCAGCACCAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACAAGC
*
16748637 AGAAGAACAAAGAACCAGCA
1 AGAGGAACAAAGAACCAGCA
16748657 CCAGCAGAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.52, C:0.22, G:0.24, T:0.02
Consensus pattern (44 bp):
AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACAAGC
Found at i:16748704 original size:18 final size:19
Alignment explanation
Indices: 16748656--16748704 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
16748646 AAGAACCAGC
* *
16748656 ACCAGCAGAGGATCAAAGA
1 ACCAGCAGATGAACAAAGA
*
16748675 AGCAGCAGATGAACAAAGA
1 ACCAGCAGATGAACAAAGA
16748694 ACCAG-AGATGA
1 ACCAGCAGATGA
16748705 GAGAAGAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.49, C:0.18, G:0.27, T:0.06
Consensus pattern (19 bp):
ACCAGCAGATGAACAAAGA
Found at i:16748711 original size:69 final size:69
Alignment explanation
Indices: 16748559--16748698 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
16748549 AGAGGAACAA
* * * *
16748559 AGCACCAGCAGAGGAACAAAGAACCAGTACAAGCAGAGGAACAAATAACCAGCAGAGGAAGAAAG
1 AGCACCAGCAGAAGAACAAAGAACCAGCACAAGCAGAGGAACAAAGAACCAGCAGAGGAACAAAG
16748624 AACC
66 AACC
* * * *
16748628 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGATCAAAGAAGCAGCAGATGAACAAAG
1 AGCACCAGCAGAAGAACAAAGAACCAGCACAAGCAGAGGAACAAAGAACCAGCAGAGGAACAAAG
16748693 AACC
66 AACC
16748697 AG
1 AG
16748699 AGATGAGAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.50, C:0.23, G:0.24, T:0.03
Consensus pattern (69 bp):
AGCACCAGCAGAAGAACAAAGAACCAGCACAAGCAGAGGAACAAAGAACCAGCAGAGGAACAAAG
AACC
Found at i:16754364 original size:18 final size:18
Alignment explanation
Indices: 16754306--16754367 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
16754296 TTAACTTTAC
*
16754306 AACTCAAAAAATTATAAAA
1 AACTTAAAAAA-TATAAAA
*
16754325 AA-TCTAAAGAATATATAGAA
1 AACT-TAAA-AA-ATATAAAA
16754345 AACTTAAAAAATATAAAA
1 AACTTAAAAAATATAAAA
16754363 AACTT
1 AACTT
16754368 TAAATCCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 13 0.36
19 7 0.19
20 14 0.39
21 2 0.06
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (18 bp):
AACTTAAAAAATATAAAA
Found at i:16755023 original size:6 final size:6
Alignment explanation
Indices: 16755014--16755048 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
16755004 AAATAAAATT
16755014 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
16755049 GTCTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:16756018 original size:29 final size:30
Alignment explanation
Indices: 16755979--16756037 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
16755969 TTTTCATTTT
16755979 AAAACATAAAAA-TATATCA-ATCTATAAAA
1 AAAACATAAAAATTATATCACATCTA-AAAA
* *
16756008 AAAATATAAAAATTATTTCACATCTAAAAA
1 AAAACATAAAAATTATATCACATCTAAAAA
16756038 GAACATGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 11 0.42
30 10 0.38
31 5 0.19
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (30 bp):
AAAACATAAAAATTATATCACATCTAAAAA
Found at i:16756580 original size:19 final size:19
Alignment explanation
Indices: 16756551--16756589 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16756541 ACAAAAAATC
*
16756551 TAAAGAATATATAGAAAACT
1 TAAAGAATATA-AAAAAACT
16756571 TAAA-AATATAAAAAAACT
1 TAAAGAATATAAAAAAACT
16756589 T
1 T
16756590 TAAACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAGAATATAAAAAAACT
Found at i:16756592 original size:19 final size:20
Alignment explanation
Indices: 16756534--16756593 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 20
16756524 TTACAACTCA
*
16756534 AAAAAT-TACAAAAAA-TCT
1 AAAAATATACAAAAAACTTT
* *
16756552 AAAGAATATATAGAAAAC-TT
1 AAA-AATATACAAAAAACTTT
16756572 AAAAATATA-AAAAAACTTT
1 AAAAATATACAAAAAACTTT
16756591 AAA
1 AAA
16756594 CCCTAACCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 9 0.26
19 14 0.41
20 11 0.32
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAATATACAAAAAACTTT
Found at i:16757154 original size:6 final size:6
Alignment explanation
Indices: 16757145--16757173 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16757135 AAATAAAATT
16757145 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
16757174 GTCTAAAAGT
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:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:16757227 original size:9 final size:9
Alignment explanation
Indices: 16757213--16757261 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
16757203 GTAGGGATTC
16757213 AATTCGGTT
1 AATTCGGTT
*
16757222 AATTCGGGT
1 AATTCGGTT
16757231 AATTCGGTT
1 AATTCGGTT
*
16757240 AATTTGGTT
1 AATTCGGTT
16757249 AATTCGGTT
1 AATTCGGTT
16757258 AATT
1 AATT
16757262 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:16757438 original size:12 final size:12
Alignment explanation
Indices: 16757421--16757445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16757411 TATTATTTCG
16757421 AGTCGGTTAACC
1 AGTCGGTTAACC
16757433 AGTCGGTTAACC
1 AGTCGGTTAACC
16757445 A
1 A
16757446 ATGAACACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (12 bp):
AGTCGGTTAACC
Found at i:16757581 original size:16 final size:17
Alignment explanation
Indices: 16757560--16757592 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16757550 GACACATGAC
*
16757560 AATTAATAA-TAAAAAA
1 AATTAAAAATTAAAAAA
16757576 AATTAAAAATTAAAAAA
1 AATTAAAAATTAAAAAA
16757593 TCTATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATTAAAAATTAAAAAA
Found at i:16758171 original size:28 final size:29
Alignment explanation
Indices: 16758135--16758198 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
16758125 TTTTCATTTT
16758135 AAAACATAAAAA-TATATCA-ATCTATAAA
1 AAAACATAAAAATTATATCACATCTA-AAA
* *
16758163 AAAATATAAAAATTATTTCACATCTAAAA
1 AAAACATAAAAATTATATCACATCTAAAA
*
16758192 AGAACAT
1 AAAACAT
16758199 GAACATGCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 11 0.37
29 14 0.47
30 5 0.17
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAACATAAAAATTATATCACATCTAAAA
Found at i:16762952 original size:27 final size:27
Alignment explanation
Indices: 16762896--16762955 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
16762886 ATTTTTTAAA
* * * *
16762896 ATTTTTTAAAAAATTATAATATAATTT
1 ATTTTTTAAAAAAATAAAAAATAATAT
*
16762923 ATTTTTTAAAAAAATAAAAAATTATAT
1 ATTTTTTAAAAAAATAAAAAATAATAT
16762950 ATTTTT
1 ATTTTT
16762956 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTTTTAAAAAAATAAAAAATAATAT
Found at i:16765274 original size:46 final size:46
Alignment explanation
Indices: 16765207--16765454 Score: 439
Period size: 46 Copynumber: 5.5 Consensus size: 46
16765197 TGATCAGTGA
*
16765207 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
16765253 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
16765299 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
*
16765345 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
*
16765391 CAAGTGGCAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
*
16765436 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
16765455 ATCATACGTA
Statistics
Matches: 196, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
43 12 0.06
44 4 0.02
45 19 0.10
46 161 0.82
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
Found at i:16772752 original size:41 final size:41
Alignment explanation
Indices: 16772695--16772798 Score: 156
Period size: 41 Copynumber: 2.5 Consensus size: 41
16772685 TTATTCTCTG
*
16772695 AATTGCATATACGTGCCCTTGTTTGTACTTCT-GTACCCCTA
1 AATTGCATATACGTGCCCCTGTTTGTACTT-TGGTACCCCTA
*
16772736 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTGCATATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
* *
16772777 AATAGCATATTCGTGCCCCTGT
1 AATTGCATATACGTGCCCCTGT
16772799 GTACACTCGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.02
41 56 0.98
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (41 bp):
AATTGCATATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
Found at i:16779818 original size:40 final size:39
Alignment explanation
Indices: 16779762--16779862 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
16779752 AATGTACAAT
* * *
16779762 TGACTGCACAATTGTGCCCTTGGATAAATTTTGGTGTCCC
1 TGACTGCAC-ATTGTGCCCCTAGATAAACTTTGGTGTCCC
* *
16779802 TGACTGCACATCTGTGCCCCTATATACACTTTGGTGTCCC
1 TGACTGCACAT-TGTGCCCCTAGATAAACTTTGGTGTCCC
* *
16779842 TAATTGCACATTTGTGCCCCT
1 TGACTGCACA-TTGTGCCCCT
16779863 GTTTGCACTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 49 0.94
41 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.35
Consensus pattern (39 bp):
TGACTGCACATTGTGCCCCTAGATAAACTTTGGTGTCCC
Found at i:16779862 original size:20 final size:20
Alignment explanation
Indices: 16779806--16779862 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
16779796 TGTCCCTGAC
*
16779806 TGCACATCTGTGCCCCTATA
1 TGCACATTTGTGCCCCTATA
* *
16779826 TACAC-TTTGGTGTCCCTA-A
1 TGCACATTT-GTGCCCCTATA
16779845 TTGCACATTTGTGCCCCT
1 -TGCACATTTGTGCCCCT
16779863 GTTTGCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.35
Consensus pattern (20 bp):
TGCACATTTGTGCCCCTATA
Found at i:16788330 original size:35 final size:35
Alignment explanation
Indices: 16788289--16788361 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
16788279 TGTGTAGATA
*
16788289 ACTTAATTAGAAAGTGTGTAGCTGAAAGTGAACTT
1 ACTTAATTAGAAAGTGTGTAGCTGAAAGTGAAATT
*
16788324 ACTTAATTAGAAAGTGTGTAGTTGAAAGTGAAATT
1 ACTTAATTAGAAAGTGTGTAGCTGAAAGTGAAATT
16788359 ACT
1 ACT
16788362 GAGATCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (35 bp):
ACTTAATTAGAAAGTGTGTAGCTGAAAGTGAAATT
Found at i:16793487 original size:45 final size:45
Alignment explanation
Indices: 16793415--16793584 Score: 193
Period size: 45 Copynumber: 3.8 Consensus size: 45
16793405 ACAGTGGATT
* * **
16793415 AGCACATAAC-ACCACCCTT-ATAGTCAATGATACTTGGTGGAATC
1 AGCACACAACAACCA-CCTTCATAATCAATGATACCCGGTGGAATC
* *
16793459 AGCACATAACAACCACCTTCATCATCAAT-AGTACCCGGTGGAATC
1 AGCACACAACAACCACCTTCATAATCAATGA-TACCCGGTGGAATC
* * *
16793504 AGCACACAGCAACGACCTTCATAATCAATGATACCCGGTGGAATT
1 AGCACACAACAACCACCTTCATAATCAATGATACCCGGTGGAATC
* * *
16793549 TGCACACAACAACCACCTTTATAATCAATGGTACCC
1 AGCACACAACAACCACCTTCATAATCAATGATACCC
16793585 AGTACGCGTA
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
44 15 0.14
45 92 0.85
46 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (45 bp):
AGCACACAACAACCACCTTCATAATCAATGATACCCGGTGGAATC
Found at i:16807774 original size:14 final size:15
Alignment explanation
Indices: 16807741--16807776 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
16807731 TTTGAAAAGG
16807741 TTTTTGATATAGTAA
1 TTTTTGATATAGTAA
16807756 TTTTTGATATAGTAA
1 TTTTTGATATAGTAA
16807771 TTTTTG
1 TTTTTG
16807777 TTTTATAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTTTGATATAGTAA
Found at i:16809056 original size:25 final size:25
Alignment explanation
Indices: 16809022--16809105 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
16809012 TCATTAGGGA
* *
16809022 TTATCGATTCTCATCTTGTTTGATC
1 TTATCGATTCTCATCTCGTATGATC
* *
16809047 TTATTGATTCTCATCTCGTAAGATC
1 TTATCGATTCTCATCTCGTATGATC
* *
16809072 TTATTGATTCTCATCTCGTATGAGC
1 TTATCGATTCTCATCTCGTATGATC
16809097 TTATCGATT
1 TTATCGATT
16809106 TACAGTTCGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (25 bp):
TTATCGATTCTCATCTCGTATGATC
Found at i:16813185 original size:44 final size:44
Alignment explanation
Indices: 16813137--16813321 Score: 142
Period size: 44 Copynumber: 4.2 Consensus size: 44
16813127 TATCCTGGAA
* *
16813137 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTTCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* ** * * * * * *
16813181 AGATAAGATCTGTTATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * **
16813225 AGACAAGGTTCGGT-GGCTTAAATCTGCTTCCCACTA-T-CTTTGAA
1 AGATAAGATT-TGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGGG
*
16813269 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
16813313 AGATAAGAT
1 AGATAAGAT
16813322 CTGTTATCCT
Statistics
Matches: 100, Mismatches: 35, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 82 0.82
45 4 0.04
46 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:16813246 original size:132 final size:132
Alignment explanation
Indices: 16813049--16813329 Score: 474
Period size: 132 Copynumber: 2.1 Consensus size: 132
16813039 CAACTTCACA
* * * *
16813049 GAGATAAGACCTG-TATTTTCAACCTACTCTATTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTA
1 GAGATAAGATCTGTTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTA
*
16813113 AATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTTCTTA
66 AATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTA
16813178 GG
131 GG
* *
16813180 GAGATAAGATCTGTTATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTA
1 GAGATAAGATCTGTTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTA
* *
16813245 AATCTGCTTCCCACTATCTTTGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTA
66 AATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTA
16813310 GG
131 GG
16813312 GAGATAAGATCTGTTATC
1 GAGATAAGATCTGTTATC
16813330 CTTACTGATC
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
131 12 0.09
132 128 0.91
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (132 bp):
GAGATAAGATCTGTTATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGGTGGCTTA
AATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTA
GG
Found at i:16837136 original size:797 final size:796
Alignment explanation
Indices: 16835725--16837311 Score: 2811
Period size: 797 Copynumber: 2.0 Consensus size: 796
16835715 ATTTGACTTG
* *
16835725 TGGAACTTGATCAACTTTGTGTAAATTTCGTGGCTTAATTAAATACAACTTAGGCTTCTCTTAAA
1 TGGAACTCGATCAACTTTGTGTAAATTTCGTGGCTTAATTAAATACAACTTAAGCTTCTCTTAAA
*
16835790 CCTTCGTCTCTTGATTTGCTATTTATTTTCATCTTTTATATCAAGTTTATTATGTTTTTTGAGAT
66 CCTTCGTCTCTTGATTTGCTATTAATTTTCATCTTTTATATCAAGTTTATTATGTTTTTTGAGAT
16835855 CCATGAGGAACTAACTCTTATGGGAAAGGAAGAATTTAAAACCTAGGCTTGACCACCCTAGGAAG
131 CCATGAGGAACTAACTCTTATGGGAAAGGAAGAATTTAAAACCTAGGCTTGACCACCCTAGGAAG
16835920 TCATTTAGGTGAGAATTAACCCAAAATTAGTATGGTCAATCCGTGAACACCTTAACCTCGACCTA
196 TCATTTAGGTGAGAATTAACCCAAAATTAGTATGGTCAATCCGTGAACACCTTAACCTCGACCTA
* *
16835985 GTCTAGGCTGTAAGGTCAAGAGATAAATGGTTCTTGCTGACTCATTATTCTAGTGAAAGATTGAG
261 GTCTAGGCTGTAAGGTCAAGAGATAAATAGTTCTTGCTGACTCATTATTCTAGTGAAAGATCGAG
16836050 AGATCCTGCTAGGGCAACGACTAGTTGATTGAACAGGGAACTCGAAGCAATAGTTAGTTATGATA
326 AGATCCTGCTAGGGCAACGACTAGTTGATTGAACAGGGAACTCGAAGCAATAGTTAGTTATGATA
* * *
16836115 ACCAAAGCGAGCTAGTCACCCATGCTCAAATCTGGTTAAGTTTCAATAGCAAATTTCTCAAAAGT
391 ACAAAAGCGAGCTAGTCACCCATGCTCAAATCTGGTTAAGTTTCAATAGAAAATTTCCCAAAAGT
* * *
16836180 TTTTCCATTTATATTATTTTATTTCCTTAGTTATTAAAAGCTCTTTCTTTGTGTTTAGTTGTAAT
456 TTTTCCAATTATATTATTTTATTTCCTTAGTTATTAAAAGCCCTTTCTTTATGTTTAGTTGTAAT
*
16836245 ATAATTTATTTAAAATACTAATTAGCTCTACTTGTGCTTAGGTTAGGATTAATTTAGTGCTCGCC
521 ATAATTTATTTAAAATACTAATTAGCTCTACTTGTGCTTAGGTTAGGATTAATTTAGTGCTCACC
*
16836310 TCCATTGGGTACGAACCTCAGAATACTCACCTACTTCGTTGTAACTATATTACAACCTGAATCGT
586 TCCATTGGGTACGAACCTCAGAATACTCACCTAATTCGTTGTAACTATATTACAACCTGAATCGT
*
16836375 GTACTTGCAGATAGCACCTATTTAACATATTTTGTGCAGGATTTCTACTATCGACATTGGTACGT
651 ATACTTGCAGATAGCACCTATTTAACATATTTTGTGCAGGATTTCTACTATCGACATTGGTACGT
*
16836440 TCAGAGGCAGTCAGTGACACACCCTAGTTAAATATAGTAAGGTTGTCACCCCTAATATGTATTAT
716 TCAGAAGCAGTCAGTGACACACCCTAGTTAAATATAGTAAGGTTGTCACCCCTAATATGTATTAT
16836505 GAAGGGTTTTTGGTTT
781 GAAGGGTTTTTGGTTT
16836521 TGGAACTCGATCAACTTTGTGTAAA-TTCTGTGG-TTCAATTAAATACAACTTAAGCTTCTCTTA
1 TGGAACTCGATCAACTTTGTGTAAATTTC-GTGGCTT-AATTAAATACAACTTAAGCTTCTCTTA
16836584 AACCTTCGTCTCTTGATTTGCTATTAATTTTCATCTTTTATATCAAGTTTATTATG-TTTTTGAG
64 AACCTTCGTCTCTTGATTTGCTATTAATTTTCATCTTTTATATCAAGTTTATTATGTTTTTTGAG
* * *
16836648 ATCCATGAGGAACTAATCCTCTTGTGGGAAAGGAAGAATTTAAAATCTAGGCTTGACGACCCTAG
129 ATCCATGAGGAACTAA--CTCTTATGGGAAAGGAAGAATTTAAAACCTAGGCTTGACCACCCTAG
* * *
16836713 GAAGTCATTTAGGTGGGAATTAACCTAAAATTGGTATGGTCAATCCGTGAACACCTTAACCTCGA
192 GAAGTCATTTAGGTGAGAATTAACCCAAAATTAGTATGGTCAATCCGTGAACACCTTAACCTCGA
* *
16836778 CCTAGTCTAGGCTGTAAGGTCAAGAGATAACTAGTTCTTGCTGACTCGTTATTCTAGTGAAAGAT
257 CCTAGTCTAGGCTGTAAGGTCAAGAGATAAATAGTTCTTGCTGACTCATTATTCTAGTGAAAGAT
*
16836843 CGAGAGATCCTGCTAGGGCAATGACTAGTTGATTGAACAGGGAACTCGAAGCAATAGTTAGTTAT
322 CGAGAGATCCTGCTAGGGCAACGACTAGTTGATTGAACAGGGAACTCGAAGCAATAGTTAGTTAT
* *
16836908 GATAACAAAAGCGAGCTAGTCACCCATGTTCAGATCTGGTTAAGTTTCAATAGAAAATTTCCCAA
387 GATAACAAAAGCGAGCTAGTCACCCATGCTCAAATCTGGTTAAGTTTCAATAGAAAATTTCCCAA
16836973 AAGTTTTTCCAATTATATTATTTTATTTCCTTAGTTATTAAAAGCCCTTTCTTTATGTTTAGTTG
452 AAGTTTTTCCAATTATATTATTTTATTTCCTTAGTTATTAAAAGCCCTTTCTTTATGTTTAGTTG
*
16837038 TAATATAATTTCTTTAAAATACTAATTAGCTCTACTTGTGCTTAGGTTAGGATTAATTTAGTGCT
517 TAATATAATTTATTTAAAATACTAATTAGCTCTACTTGTGCTTAGGTTAGGATTAATTTAGTGCT
* *
16837103 CACCTCCATTGGGTACGATCCTCAGAGTACTCACCTAATTCGTTGTAACTATATTACAACCTGAA
582 CACCTCCATTGGGTACGAACCTCAGAATACTCACCTAATTCGTTGTAACTATATTACAACCTGAA
* *
16837168 TCGTATGCTTGCAGATAGCACCTATTTAACATATTTTGTGCAGGATTTCTACTATCGACGTTGGT
647 TCGTATACTTGCAGATAGCACCTATTTAACATATTTTGTGCAGGATTTCTACTATCGACATTGGT
* * *
16837233 ACGTTCGGAAGTAGTCAGTGACACACCCTAGTTAAATATAGTAAGGTTGTCGCCCCTAATATGTA
712 ACGTTCAGAAGCAGTCAGTGACACACCCTAGTTAAATATAGTAAGGTTGTCACCCCTAATATGTA
16837298 TTATGAAGGGTTTT
777 TTATGAAGGGTTTT
16837312 GGGTCTCTCA
Statistics
Matches: 753, Mismatches: 34, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
795 29 0.04
796 109 0.14
797 615 0.82
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (796 bp):
TGGAACTCGATCAACTTTGTGTAAATTTCGTGGCTTAATTAAATACAACTTAAGCTTCTCTTAAA
CCTTCGTCTCTTGATTTGCTATTAATTTTCATCTTTTATATCAAGTTTATTATGTTTTTTGAGAT
CCATGAGGAACTAACTCTTATGGGAAAGGAAGAATTTAAAACCTAGGCTTGACCACCCTAGGAAG
TCATTTAGGTGAGAATTAACCCAAAATTAGTATGGTCAATCCGTGAACACCTTAACCTCGACCTA
GTCTAGGCTGTAAGGTCAAGAGATAAATAGTTCTTGCTGACTCATTATTCTAGTGAAAGATCGAG
AGATCCTGCTAGGGCAACGACTAGTTGATTGAACAGGGAACTCGAAGCAATAGTTAGTTATGATA
ACAAAAGCGAGCTAGTCACCCATGCTCAAATCTGGTTAAGTTTCAATAGAAAATTTCCCAAAAGT
TTTTCCAATTATATTATTTTATTTCCTTAGTTATTAAAAGCCCTTTCTTTATGTTTAGTTGTAAT
ATAATTTATTTAAAATACTAATTAGCTCTACTTGTGCTTAGGTTAGGATTAATTTAGTGCTCACC
TCCATTGGGTACGAACCTCAGAATACTCACCTAATTCGTTGTAACTATATTACAACCTGAATCGT
ATACTTGCAGATAGCACCTATTTAACATATTTTGTGCAGGATTTCTACTATCGACATTGGTACGT
TCAGAAGCAGTCAGTGACACACCCTAGTTAAATATAGTAAGGTTGTCACCCCTAATATGTATTAT
GAAGGGTTTTTGGTTT
Found at i:16842068 original size:6 final size:6
Alignment explanation
Indices: 16842059--16842094 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
16842049 GACTTTCTCC
16842059 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
16842095 GAGAAATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:16847319 original size:30 final size:30
Alignment explanation
Indices: 16847285--16847343 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
16847275 GTGGCAAAAG
*
16847285 GGGACTAAATTGGAAATAATGAAAAGTCTA
1 GGGACTAAATTGGAAATAATAAAAAGTCTA
16847315 GGGACTAAATTGGAAATAATAAAAAGTCT
1 GGGACTAAATTGGAAATAATAAAAAGTCT
16847344 TACATGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GGGACTAAATTGGAAATAATAAAAAGTCTA
Found at i:16847533 original size:4 final size:4
Alignment explanation
Indices: 16847520--16847577 Score: 107
Period size: 4 Copynumber: 14.5 Consensus size: 4
16847510 ATAATTAATT
*
16847520 TATG TTTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
16847568 TATG TATG TA
1 TATG TATG TA
16847578 CGTACGTACA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:16851569 original size:42 final size:43
Alignment explanation
Indices: 16851501--16851599 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
16851491 GATTTGAGAT
* *
16851501 TTACGTGTAAGACCGTGTCAGAGACATTGGCGTC-GTATATGA
1 TTACGTGTAAGACCCTGTCAGAGACATTGGCATCAGTATATGA
* * * * *
16851543 TTACGTGTAAGACCCTGTCTGGGACATTGTCATCATTATTTGA
1 TTACGTGTAAGACCCTGTCAGAGACATTGGCATCAGTATATGA
*
16851586 TTACATGTAAGACC
1 TTACGTGTAAGACC
16851600 ACGTCTTGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCCTGTCAGAGACATTGGCATCAGTATATGA
Found at i:16860023 original size:23 final size:23
Alignment explanation
Indices: 16859977--16860025 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
16859967 CCAGAATATT
* *
16859977 ATTTATTTAATTTAGTAAAATAA
1 ATTTAATTAATTTACTAAAATAA
* *
16860000 ATTTAATTAATTTACTCAATTAA
1 ATTTAATTAATTTACTAAAATAA
16860023 ATT
1 ATT
16860026 ATTTTTTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTAATTAATTTACTAAAATAA
Found at i:16862014 original size:27 final size:26
Alignment explanation
Indices: 16861976--16862035 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
16861966 ATATTTTTTG
16861976 AAATTTTACTAGAGGCAAAATCATCAA
1 AAATTTTACTAGAGGCAAAATCATC-A
* * *
16862003 AAATTTTACTAGTGGTAAAATCGTCA
1 AAATTTTACTAGAGGCAAAATCATCA
16862029 AAATTTT
1 AAATTTT
16862036 GCTTGGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAGAGGCAAAATCATCA
Found at i:16866381 original size:46 final size:46
Alignment explanation
Indices: 16866328--16866424 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
16866318 ACTCGTCTTA
* *
16866328 GAGATAGTTCAATAATTATCACTATCACCTCGATTCTTCATTACTT
1 GAGATAGTTCAATAATTATCACTATCACCTCGACTCTTCAATACTT
*
16866374 GAGATAGTTCAATAATTATCACTATCACCTTGACTCTTCAATACTT
1 GAGATAGTTCAATAATTATCACTATCACCTCGACTCTTCAATACTT
16866420 GAGAT
1 GAGAT
16866425 TTCTTTATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (46 bp):
GAGATAGTTCAATAATTATCACTATCACCTCGACTCTTCAATACTT
Found at i:16868295 original size:25 final size:25
Alignment explanation
Indices: 16868236--16868329 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 25
16868226 AATTCATATT
*
16868236 CAGGAATGCTCATGTGAG-CATATAA
1 CAGGAA-GCTCATGTGAGCCATGTAA
* * * *
16868261 AAGGGTAGCTC-TTTCGAGCCATTTAA
1 CA-GGAAGCTCATGT-GAGCCATGTAA
16868287 CAGGAAGCTCATGTGAGCCATGTAA
1 CAGGAAGCTCATGTGAGCCATGTAA
* **
16868312 CCGGAAGCTGTTGTGAGC
1 CAGGAAGCTCATGTGAGC
16868330 TAATTATTGA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
24 2 0.04
25 40 0.74
26 12 0.22
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (25 bp):
CAGGAAGCTCATGTGAGCCATGTAA
Found at i:16872982 original size:28 final size:27
Alignment explanation
Indices: 16872925--16873076 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
16872915 TAAATTGTGC
*
16872925 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16872952 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
16872980 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16873007 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
16873035 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16873062 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16873077 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:16872989 original size:55 final size:55
Alignment explanation
Indices: 16872925--16873076 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
16872915 TAAATTGTGC
*
16872925 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
16872980 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
16873035 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
16873077 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:16876596 original size:41 final size:41
Alignment explanation
Indices: 16876507--16876584 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
16876497 TTACCGAATC
* *
16876507 AATGAAAAGGTTGAAAAGGATTTTATTGGAAAAGGATATAA
1 AATGAAAAGGTTGAAAAGGATGTTATTGAAAAAGGATATAA
16876548 AATGAAAAGGTTGAAAAGGATGTTATCT-AAAAAGGAT
1 AATGAAAAGGTTGAAAAGGATGTTAT-TGAAAAAGGAT
16876585 GACAAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.24, T:0.26
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATTGAAAAAGGATATAA
Done.