Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 26
Found at i:1855619 original size:209 final size:209
Alignment explanation
Indices: 1855244--1855744 Score: 837
Period size: 209 Copynumber: 2.4 Consensus size: 209
1855234 ACCCTGCATT
*
1855244 AACATTTCCAACT-GG-GAGTTCATAATAAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
1 AACATTTCCAA-TGGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
* *
1855307 ATGAGAAAAACTTGTTCAACCTTGCATCAACATTTCTAGCGGGGAGCTCATAATGAGAATAACTC
65 ATGAGAAGAACTTGTTCAACCTTGCATCAACATTTCTAGCGGGGAGCTCATAATGAGAAGAACTC
* * * *
1855372 ATCCGACGAGGGATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGTTCGATTTCATCAT
130 ATCCGACGAAGGAGAAGAAGTTCATAATGAGAAGAACTTCTTCAACCTTAGTTCGATTTCATCAC
1855437 AGAAGGAGGTGGATC
195 AGAAGGAGGTGGATC
* * * *
1855452 AATATTTCTAATGGGAGAGTTCATAATGAGAAGAACTCATCAGACGAGGGAGAATAAGTTCATAA
1 AACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAA
*
1855517 TGAGAAGAACTTGTTCAACCTTGCATCAACATTTCCT-GCGGGGAGTTCATAATGAGAAGAACTC
66 TGAGAAGAACTTGTTCAACCTTGCATCAACATTT-CTAGCGGGGAGCTCATAATGAGAAGAACTC
*
1855581 ATCCGATGAAGGAGAAGAAGTTCATAATGAGAAGAACTTCTTCAACCTTAGTTCGATTTCATCAC
130 ATCCGACGAAGGAGAAGAAGTTCATAATGAGAAGAACTTCTTCAACCTTAGTTCGATTTCATCAC
1855646 AGAAGGAGGTGGATC
195 AGAAGGAGGTGGATC
*
1855661 AACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCGTCCGACGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAA
1855726 TGAGAAGAACTTGTTCAAC
66 TGAGAAGAACTTGTTCAAC
1855745 ATTGGTGATT
Statistics
Matches: 272, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
207 1 0.00
208 11 0.04
209 258 0.95
210 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (209 bp):
AACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTGCATCAACATTTCTAGCGGGGAGCTCATAATGAGAAGAACTCA
TCCGACGAAGGAGAAGAAGTTCATAATGAGAAGAACTTCTTCAACCTTAGTTCGATTTCATCACA
GAAGGAGGTGGATC
Found at i:1855694 original size:118 final size:116
Alignment explanation
Indices: 1855541--1855820 Score: 368
Period size: 118 Copynumber: 2.4 Consensus size: 116
1855531 TCAACCTTGC
* *
1855541 ATCAACATTTCC--TGCGGGGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTC
1 ATCAACATTTCCAATG-GGAGAGTTCATAATGAGAAGAACTCGTCCGATGAAGGAGAAGAAGTTC
* * * *
1855604 ATAATGAGAAGAACTTCTTCAACCTTAGTTCGATTTCATCACAGAAGGAGGTGG
65 ATAATGAGAAGAACTTCTTCAACATT-GGT-GATTCCATCACAGAAGGAAGTGG
* *
1855658 ATCAACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCGTCCGACGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCGTCCGATGAAGGAGAAGAAGTTCA
*
1855723 TAATGAGAAGAACTTGTTCAACATTGGTGATTCCATCACAGAAGGAAGTGG
66 TAATGAGAAGAACTTCTTCAACATTGGTGATTCCATCACAGAAGGAAGTGG
* ** ** * *
1855774 GTTGACATCCCCAA-CGAAGAGTTCATAATGAGAAGAACTCGTCCGAT
1 ATCAACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCGTCCGAT
1855821 CAGAAAAAAT
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
115 30 0.21
116 30 0.21
117 14 0.10
118 68 0.47
119 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (116 bp):
ATCAACATTTCCAATGGGAGAGTTCATAATGAGAAGAACTCGTCCGATGAAGGAGAAGAAGTTCA
TAATGAGAAGAACTTCTTCAACATTGGTGATTCCATCACAGAAGGAAGTGG
Found at i:1857019 original size:141 final size:139
Alignment explanation
Indices: 1856742--1857302 Score: 707
Period size: 141 Copynumber: 4.0 Consensus size: 139
1856732 TTATTTACTT
* *
1856742 CTAACTACAAACTTTTATTTTATTACACTTTAATCATTG-TTATTTATTTATTTATG----TATT
1 CTAACTACTAACTTTTATTTTATTGCACTTTAATCATTGTTTATTTATTTATTTATGTATTTATT
* * * * * *
1856802 GTTTCTAATATTTGATTCGGCCTTGTGGTGACCCGATCCAGGGTATGAGCCACATTATTATGGTT
66 ATTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATTCGGGGTATGATCTACATTATTATGGTT
1856867 CGGACTCTG
131 CGGACTCTG
1856876 CTAACTACTAACTTTTATTTTATTGCACTTTAATCATTGTGATTTATTTATTTATTTATGTATTT
1 CTAACTACTAACTTTTATTTTATTGCACTTTAATCA-T-TG-TTTATTTATTTATTTATGTATTT
*
1856941 ATTATTTCTAATATTCGATTCGGCCTTGTGGTGA-CCGATTCGGGGTATGATCTGCATTATTATG
63 ATTATTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATTCGGGGTATGATCTACATTATTATG
1857005 GTTCGGACTCTG
128 GTTCGGACTCTG
*
1857017 CTAACTACTAACTTTTATTTTATTGCACTTTAATCATTGTTATTTATTTATTTATTTAATTATAT
1 CTAACTACTAACTTTTATTTTATTGCACTTTAATCATTG---TTTATTTATTTA--T--TTATGT
* * *
1857082 ATTTATTGTTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATACGGGGTATGATCTGCATTAT
59 ATTTATTATTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATTCGGGGTATGATCTACATTAT
* **
1857147 TATAGTTCAAACTCTG
124 TATGGTTCGGACTCTG
* **
1857163 CTAACTACTGACTTTTATTTTATTGCA-TTCTAGCCATTGTTTATTTATTTA--T-T-TATTTAT
1 CTAACTACTAACTTTTATTTTATTGCACTT-TAATCATTGTTTATTTATTTATTTATGTATTTAT
* * *
1857223 TATTTTTAATATTTGATTCGACCTTGTGGTGACCCGA-TCGGGGGTATGAT-TCACATTATTATG
65 TATTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATTC-GGGGTATGATCT-ACATTATTATG
*
1857286 GTTCGGATTCTG
128 GTTCGGACTCTG
1857298 CTAAC
1 CTAAC
1857303 CGATAATAAC
Statistics
Matches: 381, Mismatches: 28, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
134 36 0.09
135 74 0.19
136 3 0.01
137 1 0.00
138 17 0.04
139 2 0.01
140 1 0.00
141 86 0.23
142 33 0.09
143 13 0.03
145 44 0.12
146 71 0.19
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (139 bp):
CTAACTACTAACTTTTATTTTATTGCACTTTAATCATTGTTTATTTATTTATTTATGTATTTATT
ATTTCTAATATTCGATTCGGCCTTGTGGTGACCCGATTCGGGGTATGATCTACATTATTATGGTT
CGGACTCTG
Found at i:1857524 original size:16 final size:17
Alignment explanation
Indices: 1857505--1857552 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
1857495 TTTATTTTAA
1857505 GTTTTTTTTATTTA-TT
1 GTTTTTTTTATTTACTT
1857521 GTTTTTTATTATTGTACTT
1 GTTTTTT-TTATT-TACTT
1857540 -TTTTATTTTATTT
1 GTTTT-TTTTATTT
1857553 TAATTAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 11 0.39
19 4 0.14
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (17 bp):
GTTTTTTTTATTTACTT
Found at i:1863832 original size:18 final size:18
Alignment explanation
Indices: 1863809--1863843 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1863799 TTCTCTCTAG
1863809 TTAAACAACATTTTCAAA
1 TTAAACAACATTTTCAAA
1863827 TTAAACAACATTTTCAA
1 TTAAACAACATTTTCAA
1863844 GTCTATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAACAACATTTTCAAA
Found at i:1875594 original size:22 final size:22
Alignment explanation
Indices: 1875569--1875635 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
1875559 AACATCTAAA
1875569 CTTCAACTCTTTTTTTCTTTTT
1 CTTCAACTCTTTTTTTCTTTTT
1875591 CTTC-ACAT-TTTTTATTCTTTTT
1 CTTCAAC-TCTTTTT-TTCTTTTT
* * *
1875613 TTTCGAACACTTTTCTCTCTTTT
1 CTTC-AACTCTTTT-TTTCTTTT
1875636 CTTTTCTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
21 7 0.19
22 16 0.44
24 12 0.33
25 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.64
Consensus pattern (22 bp):
CTTCAACTCTTTTTTTCTTTTT
Found at i:1888916 original size:43 final size:43
Alignment explanation
Indices: 1888842--1888943 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
1888832 TCCGTAAAGG
** **
1888842 ATCCCATATAGAATCAGGACAGAGATAATGCCCTTGATAGAGA
1 ATCCCATGCAGAATCAGGACAGAGATAATGCCCTCCATAGAGA
** * * *
1888885 ATCCCATGCAGAATCAGGATTGGGATGATGCCCTCCATAGAGG
1 ATCCCATGCAGAATCAGGACAGAGATAATGCCCTCCATAGAGA
1888928 ATCCCATGCAGAATCA
1 ATCCCATGCAGAATCA
1888944 AAAAAATGGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (43 bp):
ATCCCATGCAGAATCAGGACAGAGATAATGCCCTCCATAGAGA
Found at i:1889942 original size:75 final size:75
Alignment explanation
Indices: 1889810--1889969 Score: 214
Period size: 75 Copynumber: 2.1 Consensus size: 75
1889800 CCAAATTTTG
* * * *
1889810 GTATTGATACCAAGTAACATCGAATCTAAAAATGGTATCGATATCGGAAGGGGGTATCGGTACCA
1 GTATCGATACCAAGCAACATCGAATATAAAAATGGTATCGATATCGGAAGGGAGTATCGGTACCA
* *
1889875 TAGTAGGGTA
66 TAGTAGAGAA
* * *
1889885 GTATCGATACCATGCAACATCGAATATAAAATTGGTATCGATA-CTTGAAGGGAGTATCGGTACC
1 GTATCGATACCAAGCAACATCGAATATAAAAATGGTATCGATATC-GGAAGGGAGTATCGGTACC
*
1889949 ATAGTATAGAA
65 ATAGTAGAGAA
1889960 GTATCGATAC
1 GTATCGATAC
1889970 TATGGTAGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 1 0.01
75 73 0.99
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (75 bp):
GTATCGATACCAAGCAACATCGAATATAAAAATGGTATCGATATCGGAAGGGAGTATCGGTACCA
TAGTAGAGAA
Found at i:1890392 original size:20 final size:20
Alignment explanation
Indices: 1890367--1890576 Score: 89
Period size: 20 Copynumber: 9.6 Consensus size: 20
1890357 TGTGTAAAAT
*
1890367 GCATGAAAGGATATATTAAA
1 GCATGAAAGGATACATTAAA
* *
1890387 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATACATTAAA
*
1890407 GCATGAAAGGATGCCATAATTAAAA
1 GCATGAAAGGAT---A-CATT-AAA
* * *
1890432 TGCATGAAATGATGCATTAAG
1 -GCATGAAAGGATACATTAAA
*
1890453 GCATGAAAGGATGCCATAATTAAAA
1 GCATGAAAGGAT---A-CATT-AAA
* * *
1890478 TACATGAAATGG-TGCATTAAG
1 -GCATGAAA-GGATACATTAAA
* * *
1890499 GCATGAAAGGGTGCATTAAG
1 GCATGAAAGGATACATTAAA
*
1890519 GCATGAAAGGATGCCAAAATTAAAA
1 GCATGAAAGGAT----ACATT-AAA
* *
1890544 TGCATGAAAGGATGCATTAAG
1 -GCATGAAAGGATACATTAAA
1890565 GCATGAAAGGAT
1 GCATGAAAGGAT
1890577 GCCATAATTT
Statistics
Matches: 144, Mismatches: 26, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
19 2 0.01
20 79 0.55
21 6 0.04
22 9 0.06
24 9 0.06
25 6 0.04
26 31 0.22
27 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATACATTAAA
Found at i:1890446 original size:46 final size:46
Alignment explanation
Indices: 1890387--1890508 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
1890377 ATATATTAAA
*
1890387 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1890433 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* *
1890479 ACATGAAATGGTGCATTAAGGCATGAAAGG
1 GCATGAAATGATGCATTAAGGCATGAAAGG
1890509 GTGCATTAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.22
Consensus pattern (46 bp):
GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
Found at i:1890503 original size:66 final size:66
Alignment explanation
Indices: 1890433--1890578 Score: 240
Period size: 66 Copynumber: 2.2 Consensus size: 66
1890423 TAATTAAAAT
* *
1890433 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATACATGAAATGG-TGCATTA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAATTAAAATACATGAAA-GGATGCATTA
1890497 AG
65 AG
* *
1890499 GCATGAAAGGGTGCATTAAGGCATGAAAGGATGCCAAAATTAAAATGCATGAAAGGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAATTAAAATACATGAAAGGATGCATTAA
1890564 G
66 G
1890565 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1890579 CATAATTTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
65 2 0.03
66 72 0.97
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (66 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAATTAAAATACATGAAAGGATGCATTAA
G
Found at i:1890601 original size:112 final size:112
Alignment explanation
Indices: 1890381--1890585 Score: 374
Period size: 112 Copynumber: 1.8 Consensus size: 112
1890371 GAAAGGATAT
* *
1890381 ATTAAAGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
1 ATTAAAGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAATTAAAATGCATGAAAGGATG
1890446 CATTAAGGCATGAAAGGATGCCATAATTAAAATACATGAAATGGTGC
66 CATTAAGGCATGAAAGGATGCCATAATTAAAATACATGAAATGGTGC
* *
1890493 ATTAAGGCATGAAAGGGTGCATTAAGGCATGAAAGGATGCCAAAATTAAAATGCATGAAAGGATG
1 ATTAAAGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAATTAAAATGCATGAAAGGATG
1890558 CATTAAGGCATGAAAGGATGCCATAATT
66 CATTAAGGCATGAAAGGATGCCATAATT
1890586 TTAAATGTAT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 89 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (112 bp):
ATTAAAGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAAAATTAAAATGCATGAAAGGATG
CATTAAGGCATGAAAGGATGCCATAATTAAAATACATGAAATGGTGC
Found at i:1892939 original size:64 final size:65
Alignment explanation
Indices: 1892818--1892942 Score: 182
Period size: 64 Copynumber: 1.9 Consensus size: 65
1892808 GAATGCTTTT
* * * **
1892818 CATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTTTATTCATCGATGCACCAGC
1 CATGCATCGATGCACTCAAGCTTTTATGAAAACATCGAATGCATTATATGAATCGATGCACCAGC
1892883 CATGCATCGATGCACTCAAGCTATTT-TG-AAACATCGAATGCATTATATGAATCGATGCAC
1 CATGCATCGATGCACTCAAGCT-TTTATGAAAACATCGAATGCATTATATGAATCGATGCAC
1892943 TCTTAGTGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 29 0.54
65 22 0.41
66 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (65 bp):
CATGCATCGATGCACTCAAGCTTTTATGAAAACATCGAATGCATTATATGAATCGATGCACCAGC
Found at i:1898797 original size:21 final size:22
Alignment explanation
Indices: 1898768--1898826 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
1898758 TGTATCCCTT
1898768 TGAATGTGCATCGATACA-CCA
1 TGAATGTGCATCGATACAGCCA
* * * *
1898789 TGAAGGTGCACCGATGCATGCCT
1 TGAATGTGCATCGATACA-GCCA
1898812 TGAATGTGCATCGAT
1 TGAATGTGCATCGAT
1898827 GCACACTGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAATGTGCATCGATACAGCCA
Found at i:1898820 original size:23 final size:21
Alignment explanation
Indices: 1898767--1898830 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 21
1898757 ATGTATCCCT
*
1898767 TTGAATGTGCATCGATACACC
1 TTGAATGTGCATCGATGCACC
* * *
1898788 ATGAAGGTGCACCGATGCATGCC
1 TTGAATGTGCATCGATGCA--CC
1898811 TTGAATGTGCATCGATGCAC
1 TTGAATGTGCATCGATGCAC
1898831 ACTGCCATGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 16 0.47
23 18 0.53
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGAATGTGCATCGATGCACC
Found at i:1904207 original size:12 final size:12
Alignment explanation
Indices: 1904190--1904215 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1904180 CTGATTTCCT
1904190 GAAGACGATCGA
1 GAAGACGATCGA
1904202 GAAGACGATCGA
1 GAAGACGATCGA
1904214 GA
1 GA
1904216 GGGCCTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.35, T:0.08
Consensus pattern (12 bp):
GAAGACGATCGA
Found at i:1905859 original size:13 final size:13
Alignment explanation
Indices: 1905828--1905862 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
1905818 GGGGAGTAAT
*
1905828 TTTTCAAACTTTA
1 TTTTCAAAATTTA
1905841 -TTTCAAAATTTA
1 TTTTCAAAATTTA
1905853 TTTTCAAAAT
1 TTTTCAAAAT
1905863 CTTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTTCAAAATTTA
Found at i:1911334 original size:95 final size:95
Alignment explanation
Indices: 1911166--1911389 Score: 331
Period size: 95 Copynumber: 2.4 Consensus size: 95
1911156 ATACCGACAA
* * *
1911166 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAATCTAAAAATGGTATCTA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATATAAAAATGGTATCGA
*
1911231 TACCGGAAGGGGGTATCGGTACCATAATAG
66 TACCGGAAGGGAGTATCGGTACCATAATAG
* * *
1911261 GGTAGTATTGATACCATGGTAAGGGTATCGATACCATGCAACATCGAATATAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATATAAAAATGGTATCGA
* * *
1911326 TACTGGAAGGGAGTATCGGTACCATAGTAT
66 TACCGGAAGGGAGTATCGGTACCATAATAG
* * *
1911356 AGTAGTATCGATACTATGGTAGGGGTATCGATAC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATAC
1911390 AATGATAGGG
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 115 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATATAAAAATGGTATCGA
TACCGGAAGGGAGTATCGGTACCATAATAG
Found at i:1911385 original size:20 final size:20
Alignment explanation
Indices: 1911360--1911411 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1911350 TAGTATAGTA
*
1911360 GTATCGATACTATGGTAGGG
1 GTATCGATACTATGATAGGG
*
1911380 GTATCGATACAATGATAGGG
1 GTATCGATACTATGATAGGG
* *
1911400 ATATTGATACTA
1 GTATCGATACTA
1911412 CCAAGTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (20 bp):
GTATCGATACTATGATAGGG
Found at i:1911834 original size:46 final size:46
Alignment explanation
Indices: 1911782--1911975 Score: 217
Period size: 46 Copynumber: 4.0 Consensus size: 46
1911772 TTAGAGTGTG
* *
1911782 TAAAATGCATGAAAGGATATATTAAGGCATGAAAGGATGTCATAAT
1 TAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATGCCATAAT
* *
1911828 TAAAATGCATGAAAGGATGCCATAGATGCATTAAGGAATAAAAGGATGCCATAAT
1 TAAAATGCATGAAA-G--G--AT--A--CATTAAGGCATGAAAGGATGCCATAAT
* * *
1911883 TAAAATGCATGAAATGATACATTAAGGCATGAAATGATGTCATAAT
1 TAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATGCCATAAT
* * *
1911929 TAAAATTCATGAAAGGATGCATTAAGGCATGAAATGATGCCATAAT
1 TAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATGCCATAAT
1911975 T
1 T
1911976 TTAAATGTAT
Statistics
Matches: 126, Mismatches: 13, Indels: 18
0.80 0.08 0.11
Matches are distributed among these distances:
46 80 0.63
47 1 0.01
48 1 0.01
49 1 0.01
50 2 0.02
51 2 0.02
52 1 0.01
53 1 0.01
55 37 0.29
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (46 bp):
TAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATGCCATAAT
Found at i:1913024 original size:23 final size:24
Alignment explanation
Indices: 1912975--1913042 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
1912965 TCAACGGGTT
*
1912975 GGGTCGGTCAAAGTC-AATGCATC
1 GGGTCGATCAAAGTCAAATGCATC
* *
1912998 -GGTCGCTCAAAGTCAAATG-GTC
1 GGGTCGATCAAAGTCAAATGCATC
*
1913020 GGGTCAATCAAAGTCAAAGTGCA
1 GGGTCGATCAAAGTCAAA-TGCA
1913043 AGTTGATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 15 0.42
23 19 0.53
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (24 bp):
GGGTCGATCAAAGTCAAATGCATC
Found at i:1913812 original size:70 final size:69
Alignment explanation
Indices: 1913697--1913845 Score: 271
Period size: 70 Copynumber: 2.1 Consensus size: 69
1913687 TTAAATTGAC
*
1913697 TATTAGATTATTAATACACTCTTTTATTTGATGTTGTGTTAAAATTATGTTTTTATTCTATTTAT
1 TATTAGATTATTAATACACTCTTTTATTTGATGTTGTGTTAAAATTATGCTTTTATTCTATTTAT
*
1913762 GTTT
66 ATTT
1913766 TATTTAGATTATTAATACACTCTTTTATTTGATGTTGTGTTAAAATTATGCTTTTATTCTATTTA
1 TA-TTAGATTATTAATACACTCTTTTATTTGATGTTGTGTTAAAATTATGCTTTTATTCTATTTA
1913831 TATTT
65 TATTT
1913836 TATTAGATTA
1 TATTAGATTA
1913846 AGTAATGAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
69 10 0.13
70 67 0.87
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (69 bp):
TATTAGATTATTAATACACTCTTTTATTTGATGTTGTGTTAAAATTATGCTTTTATTCTATTTAT
ATTT
Found at i:1917294 original size:18 final size:18
Alignment explanation
Indices: 1917271--1917306 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1917261 GGGGGGATTG
*
1917271 GTAAAATGAAATTAAATA
1 GTAAAAAGAAATTAAATA
*
1917289 GTAAAAAGAGATTAAATA
1 GTAAAAAGAAATTAAATA
1917307 AATAAAGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (18 bp):
GTAAAAAGAAATTAAATA
Found at i:1921852 original size:21 final size:19
Alignment explanation
Indices: 1921810--1921847 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1921800 GATAGCACTA
1921810 TATATAAGGGTATCAATAC
1 TATATAAGGGTATCAATAC
* *
1921829 TATATGAGGGTATCGATAC
1 TATATAAGGGTATCAATAC
1921848 CCTATTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
TATATAAGGGTATCAATAC
Found at i:1929185 original size:41 final size:40
Alignment explanation
Indices: 1929140--1929348 Score: 139
Period size: 41 Copynumber: 5.1 Consensus size: 40
1929130 TTAGCGGCAT
* * * * *
1929140 TTTTTTAACAAACGTCGGTAAATACTTGTACTTTAGTGGTG
1 TTTTTAAACAAACGCCGCTAAATA-TTATACTTTAGTGGCG
*
1929181 TTTTTAAATAAACGCCGCTAAATATTATACTTTAGTGGCG
1 TTTTTAAACAAACGCCGCTAAATATTATACTTTAGTGGCG
* * * * * * * *
1929221 TTTGTATACAAACACCTCCAAAGAGTCATACTTTAGTAGCG
1 TTTTTAAACAAACGCCGCTAAATA-TTATACTTTAGTGGCG
* * * * ** *
1929262 TTTGTATACAAATGCCGCTAAAGACCCATACTTTAGTGGCA
1 TTTTTAAACAAACGCCGCTAAATA-TTATACTTTAGTGGCG
* * * * * *
1929303 TTTTTATACAAACGTCGCCAAAGATTCGTACTTTAGTGGTG
1 TTTTTAAACAAACGCCGCTAAATATT-ATACTTTAGTGGCG
1929344 TTTTT
1 TTTTT
1929349 TTGAATAAAT
Statistics
Matches: 134, Mismatches: 32, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
40 31 0.23
41 103 0.77
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (40 bp):
TTTTTAAACAAACGCCGCTAAATATTATACTTTAGTGGCG
Found at i:1934333 original size:27 final size:27
Alignment explanation
Indices: 1934295--1934357 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
1934285 TGTATCTAAG
1934295 GTTACTTTTATATTTACATATGGTTGT
1 GTTACTTTTATATTTACATATGGTTGT
1934322 GTTACTTTTATATTTACATATGGTTGT
1 GTTACTTTTATATTTACATATGGTTGT
1934349 GTTACTTTT
1 GTTACTTTT
1934358 TTTTAGTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.57
Consensus pattern (27 bp):
GTTACTTTTATATTTACATATGGTTGT
Found at i:1937179 original size:21 final size:22
Alignment explanation
Indices: 1937153--1937211 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
1937143 TGATTTATTA
*
1937153 TTATGGATTTCATGTTTC-TTG
1 TTATGGATTTCAAGTTTCGTTG
1937174 TTATGGATTTCAAG-TTCGTTG
1 TTATGGATTTCAAGTTTCGTTG
*
1937195 TTATGGATATCAAGTTT
1 TTATGGATTTCAAGTTT
1937212 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 3 0.09
21 29 0.85
22 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.51
Consensus pattern (22 bp):
TTATGGATTTCAAGTTTCGTTG
Found at i:1937466 original size:43 final size:43
Alignment explanation
Indices: 1937395--1937489 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
1937385 TTTTACATTC
*
1937395 ACAAACA-C-CTATATGCCATAACATTTAGCGGCATTTTTGGG
1 ACAAACACCACTATATGCCAGAACATTTAGCGGCATTTTTGGG
* **
1937436 AACAAACACCACTATATGTCAGAACA-TTAGCGGTGTTTTTGGG
1 -ACAAACACCACTATATGCCAGAACATTTAGCGGCATTTTTGGG
1937479 ACAAAACACCA
1 AC-AAACACCA
1937490 TAACATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 9 0.20
43 24 0.52
44 13 0.28
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (43 bp):
ACAAACACCACTATATGCCAGAACATTTAGCGGCATTTTTGGG
Found at i:1942756 original size:21 final size:22
Alignment explanation
Indices: 1942712--1942762 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
1942702 TAAACTTGTC
1942712 ATCCATAACAAAAAAACATGAA
1 ATCCATAACAAAAAAACATGAA
** *
1942734 ATCCATAAC-AACCAACTTGAA
1 ATCCATAACAAAAAAACATGAA
1942755 ATCCATAA
1 ATCCATAA
1942763 TAATAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.55, C:0.24, G:0.04, T:0.18
Consensus pattern (22 bp):
ATCCATAACAAAAAAACATGAA
Found at i:1949147 original size:19 final size:19
Alignment explanation
Indices: 1949125--1949167 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1949115 AATAATAGAT
1949125 AAGAAGTAAACAAAGTTCC
1 AAGAAGTAAACAAAGTTCC
* *
1949144 AAGAAGTACACAAAGTTCT
1 AAGAAGTAAACAAAGTTCC
1949163 AAGAA
1 AAGAA
1949168 ACAACCTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.16
Consensus pattern (19 bp):
AAGAAGTAAACAAAGTTCC
Found at i:1951551 original size:41 final size:41
Alignment explanation
Indices: 1951451--1951567 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 41
1951441 AGCGCTTCCT
** * * *
1951451 AAAGTACGAGTATTTAGCGGTGTTTGTATAAAAACACTACT
1 AAAGTACGAGCCTTTAGCGGCGTTTGTATAAAAACACCACG
*
1951492 AAAGTACGAGCCTATAGCGGCGTTTGTATAAAAACACCACG
1 AAAGTACGAGCCTTTAGCGGCGTTTGTATAAAAACACCACG
** * * *
1951533 AAAGTATTAGTCTTTAGCGGCGTTCGTATACAAAC
1 AAAGTACGAGCCTTTAGCGGCGTTTGTATAAAAAC
1951568 GACGCTAAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (41 bp):
AAAGTACGAGCCTTTAGCGGCGTTTGTATAAAAACACCACG
Found at i:1957426 original size:11 final size:12
Alignment explanation
Indices: 1957400--1957536 Score: 59
Period size: 13 Copynumber: 10.9 Consensus size: 12
1957390 AGTAAGTAAA
1957400 AAAATAAATAAT
1 AAAATAAATAAT
1957412 AAAATATATATAA-
1 AAAATA-A-ATAAT
* *
1957425 AAAAGAAA-AAG
1 AAAATAAATAAT
*
1957436 AAAATAAATAAA
1 AAAATAAATAAT
*
1957448 ACAAATAAACAA-
1 A-AAATAAATAAT
*
1957460 AATAAT-AATAAC
1 AA-AATAAATAAT
*
1957472 AAATTACGAATAAT
1 AAAATA--AATAAT
* *
1957486 ATATATATATATAT
1 A-AAATAAATA-AT
1957500 AAAATAAATAA-
1 AAAATAAATAAT
1957511 AAAAGTAAATATAT
1 AAAA-TAAATA-AT
*
1957525 ATAAATTAATAA
1 A-AAATAAATAA
1957537 ATTAAATGAC
Statistics
Matches: 96, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
10 2 0.02
11 19 0.20
12 23 0.24
13 27 0.28
14 19 0.20
15 6 0.06
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:1957993 original size:2 final size:2
Alignment explanation
Indices: 1957986--1958015 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1957976 GAACATACGC
1957986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1958016 CAAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1958051 original size:12 final size:11
Alignment explanation
Indices: 1958023--1958063 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1958013 TATCAAAATA
* *
1958023 AATAATATAAA
1 AATAATACAAG
1958034 AATAATACAAG
1 AATAATACAAG
1958045 TAATAATACAAG
1 -AATAATACAAG
1958057 AATAATA
1 AATAATA
1958064 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:1958124 original size:27 final size:26
Alignment explanation
Indices: 1958081--1958132 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1958071 AGAGAAAGTA
1958081 AAAAAATATAATGATAATA-AAATAT
1 AAAAAATATAATGATAATATAAATAT
*
1958106 AAAAAATATACATATATAATATAAATA
1 AAAAAATATA-AT-GATAATATAAATA
1958133 AGTAGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 6 0.26
28 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAAATATAATGATAATATAAATAT
Found at i:1958167 original size:9 final size:9
Alignment explanation
Indices: 1958153--1958191 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
1958143 AAGGAAATAT
1958153 AATAATAAA
1 AATAATAAA
1958162 AATAATAAA
1 AATAATAAA
* **
1958171 TATAATAGT
1 AATAATAAA
1958180 AATAATAAA
1 AATAATAAA
1958189 AAT
1 AAT
1958192 GCAAAGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (9 bp):
AATAATAAA
Found at i:1958171 original size:21 final size:20
Alignment explanation
Indices: 1958147--1958191 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
1958137 GAATAAAAGG
1958147 AAATATAATAATAAAAATAA
1 AAATATAATAATAAAAATAA
* *
1958167 TAAATATAATAGTAATAATAA
1 -AAATATAATAATAAAAATAA
1958188 AAAT
1 AAAT
1958192 GCAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATATAATAATAAAAATAA
Found at i:1958808 original size:37 final size:37
Alignment explanation
Indices: 1958753--1958857 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 37
1958743 GTGCTTGTGG
* * *
1958753 ATCCTATCTTT-AGTAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTAAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
1958790 ATCTTATTTTAAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTAAGGAGTTTGAATCCTAGTAGAACTCT
*
1958827 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTAAGGAGTTTGAATCCTAGTAG
1958858 GACGAAAATG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 3 0.05
37 53 0.95
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTAAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1959892 original size:106 final size:106
Alignment explanation
Indices: 1959588--1962446 Score: 4442
Period size: 106 Copynumber: 27.0 Consensus size: 106
1959578 GCATTGTTCT
* * * ** * *
1959588 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTTTGGAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * *
1959652 ACCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1959694 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
1959753 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
1959795 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1959859 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1959900 GAGTCCAATATCCTAT-GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATAGACA
1 GAGTCCAATATCCT-TCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * **
1959964 ACCAGTGGTCCCTTCATCGTGAAGTTGAACTTGAATTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1960006 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTCTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1960071 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* **
1960112 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTAATGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1960177 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1960218 GAGTTCAATATCATTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1960283 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1960324 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1960389 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1960430 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1960495 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1960536 GAGTCCAATATCCTACGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1960601 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1960642 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1960707 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1960748 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTTGCTCTGAAATTGGGAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
** *
1960813 CCAGCGGTCTATTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1960854 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTAAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1960919 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1960960 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1961025 CCAGCGGTCCCTTCGTCGTGAAGTTCAACTTGCGGTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961066 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1961131 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961172 AAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1961237 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961278 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1961342 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961383 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1961448 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961489 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
1961554 CCAGAGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961595 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1961660 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961701 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
1961766 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961807 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1961872 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1961913 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1961978 CCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1962019 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
1962084 CCAGCGGTCTCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1962125 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * * *
1962190 CTAGTGGTCCCTTCATCGTGAAGTTGAGCTAGCATTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1962231 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1962296 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1962337 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
1962402 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1962443 GAGT
1 GAGT
1962447 GGCACGATAT
Statistics
Matches: 2527, Mismatches: 214, Indels: 24
0.91 0.08 0.01
Matches are distributed among these distances:
100 79 0.03
101 5 0.00
102 4 0.00
104 3 0.00
105 103 0.04
106 2331 0.92
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1963435 original size:22 final size:22
Alignment explanation
Indices: 1963409--1963463 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1963399 TTGTGTTTGG
1963409 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1963431 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1963453 TCAAAGGTTTG
1 TCAAAGGTTTG
1963464 ATGGGGTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1964155 original size:170 final size:173
Alignment explanation
Indices: 1963859--1964203 Score: 579
Period size: 170 Copynumber: 2.0 Consensus size: 173
1963849 AAATAGGCCC
*
1963859 AAACAAGTATTTCAGGGTGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTGC
1 AAACAAGTATTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAA-CA-GTCCTGC
1963924 TCAAAATGTCTCTCTCTTGAGGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGA
64 TCAAAATGTCTCTCTCTTGAGGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGA
* *
1963989 TTGTGCTTGATCAATCTCATAGTTTGAAGTTTGATGTGCTATTTT
129 TTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTT
* * *
1964034 AAACTAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTGCTC
1 AAACAAGTATTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCTC
* *
1964096 AAAATGTTTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGATT
66 AAAATGTCTCTCTCTTGAGGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGATT
1964161 GTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTT
131 GTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTT
1964204 TTAGGGAATC
Statistics
Matches: 162, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
170 112 0.69
172 1 0.01
174 1 0.01
175 48 0.30
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (173 bp):
AAACAAGTATTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCTC
AAAATGTCTCTCTCTTGAGGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGATT
GTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTTT
Found at i:1964263 original size:23 final size:23
Alignment explanation
Indices: 1964222--1964305 Score: 75
Period size: 23 Copynumber: 3.6 Consensus size: 23
1964212 TCTTTGCATG
*
1964222 TGATTTTTGTCCCTTTTTCT-TTT
1 TGATTTTTGT-TCTTTTTCTCTTT
1964245 TGATTTTTGTTCTTGTTTCTCTTT
1 TGATTTTTGTTCTT-TTTCTCTTT
*
1964269 T-ATCTTTGTT-TTTTTGCTTCTTT
1 TGATTTTTGTTCTTTTT-C-TCTTT
**
1964292 TCTTTTTTGTTCTT
1 TGATTTTTGTTCTT
1964306 GATTGGATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
21 3 0.06
22 6 0.12
23 29 0.57
24 11 0.22
25 2 0.04
ACGTcount: A:0.04, C:0.14, G:0.10, T:0.73
Consensus pattern (23 bp):
TGATTTTTGTTCTTTTTCTCTTT
Found at i:1968953 original size:9 final size:9
Alignment explanation
Indices: 1968939--1968999 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
1968929 AAATAGTAAG
1968939 TAAAAAAAA
1 TAAAAAAAA
1968948 TAAAAAAAAA
1 T-AAAAAAAA
1968958 TAGAAAAAGAA
1 TA-AAAAA-AA
1968969 -AAGAAATAAA
1 TAA-AAA-AAA
*
1968979 TAAAACAAA
1 TAAAAAAAA
*
1968988 TAAACAAAA
1 TAAAAAAAA
1968997 TAA
1 TAA
1969000 TAATAACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 16 0.37
10 22 0.51
11 5 0.12
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.11
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:1969551 original size:12 final size:11
Alignment explanation
Indices: 1969523--1969563 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1969513 TAACAAAATA
* *
1969523 AATAATATAAA
1 AATAATACAAG
1969534 AATAATACAAG
1 AATAATACAAG
1969545 TAATAATACAAG
1 -AATAATACAAG
1969557 AATAATA
1 AATAATA
1969564 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:1969668 original size:12 final size:12
Alignment explanation
Indices: 1969646--1969690 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1969636 GAATAAAAGG
1969646 AAAATATAATAGT
1 AAAA-ATAATAGT
*
1969659 AAAAATAATAAT
1 AAAAATAATAGT
*
1969671 AAATATAATAGT
1 AAAAATAATAGT
*
1969683 AATAATAA
1 AAAAATAA
1969691 AAATACAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:1969674 original size:24 final size:24
Alignment explanation
Indices: 1969647--1969695 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1969637 AATAAAAGGA
*
1969647 AAATATAATAGTAAAAATAATAAT
1 AAATATAATAGTAAAAATAAAAAT
*
1969671 AAATATAATAGTAATAATAAAAAT
1 AAATATAATAGTAAAAATAAAAAT
1969695 A
1 A
1969696 CAAAGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATATAATAGTAAAAATAAAAAT
Found at i:1969796 original size:2 final size:2
Alignment explanation
Indices: 1969789--1969816 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1969779 AGCAAGTATG
1969789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1969817 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1970309 original size:37 final size:37
Alignment explanation
Indices: 1970268--1970346 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
1970258 TATCTTTAGT
* * *
1970268 AGTTTAAATTATAGTAGAACTCTATCTTATTTTAAGG
1 AGTTTAAATCATAGTAAAACTCTATCATATTTTAAGG
* * * *
1970305 AGTTTGAATCCTAGTAAAATTCTATCATATTTTTAGG
1 AGTTTAAATCATAGTAAAACTCTATCATATTTTAAGG
1970342 AGTTT
1 AGTTT
1970347 GAATATCAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (37 bp):
AGTTTAAATCATAGTAAAACTCTATCATATTTTAAGG
Found at i:1970347 original size:37 final size:37
Alignment explanation
Indices: 1970279--1970350 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
1970269 GTTTAAATTA
* *
1970279 TAGTAGAACTCTATCTTATTTTAAGGAGTTTGAATCC
1 TAGTAAAACTCTATCATATTTTAAGGAGTTTGAATCC
* *
1970316 TAGTAAAATTCTATCATATTTTTAGGAGTTTGAAT
1 TAGTAAAACTCTATCATATTTTAAGGAGTTTGAAT
1970351 ATCAGTAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (37 bp):
TAGTAAAACTCTATCATATTTTAAGGAGTTTGAATCC
Found at i:1977384 original size:36 final size:34
Alignment explanation
Indices: 1977328--1977394 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 34
1977318 TAATATAAAA
* *
1977328 AATATAAAATATTATATATTATATATATATAATT
1 AATATAAAAAATTAAATATTATATATATATAATT
1977362 AATATAAAAAATATAAAGTATTATATATATATA
1 AATATAAAAAAT-TAAA-TATTATATATATATA
1977395 TAATCGGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 11 0.38
35 3 0.10
36 15 0.52
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
AATATAAAAAATTAAATATTATATATATATAATT
Found at i:1992263 original size:419 final size:410
Alignment explanation
Indices: 1991459--1992292 Score: 1506
Period size: 419 Copynumber: 2.0 Consensus size: 410
1991449 CGATGATGAT
1991459 GAATTTTTTATGGCTAGGATAGAATGTACATGACTGGTTAAGGAGGATAGAACCAACTCCAGGAC
1 GAATTTTTTATGGCTAGGATAGAATGTACATGACTGGTTAAGGAGGATAGAACCAACTCCAGGAC
*
1991524 TTTCCTCTTTGAAACCCTTGAATACATGATTGTATGTTTTCCATACTTTAAAAACTTAGAAATTT
66 TTGCCTCTTTGAAACCCTTGAATACATGATTGTATGTTTTCCATACTTTAAAAACTTAGAAATTT
1991589 TGTATAAGAGAATTCTTAAAATGTCGTGGCATAAAACTGTGAATGATGAAACCCCGCATAAAAAA
131 TGTATAAGAGAATTCTTAAAATGTCGTGGCATAAAACTGTGAATGATGAAACCCCGCATAAAAAA
*
1991654 TTGATGAAAAATTAAAAAAATGAAAATGAATGAGTGAAGTTATAAATAAATGCGTCGGCATATCT
196 TTGATGAAAAATTAAAAAAATGAAAATGAATGAGTGAAGTTATAAATAAATGCCTCGGCATATCT
*
1991719 ATAGAGGGATACTCCGTTATGCCATGACATATGAGTGAACGAAAGATGTCACGGGATGACTCTAC
261 ATAGAGGGACACTCCGTTATGCCATGACATATGAGTGAACGAAAGATGTCACGGGATGACTCTAC
1991784 CTGACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGGTGTGATA
326 CTGACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGGTGTGATA
1991849 GGCTGACTCCCCTCATAGCA
391 GGCTGACTCCCCTCATAGCA
*
1991869 GAATTTTTTATGGCTAGGATAGAATGTACATGACTGGTTAAGGAGGATAGAACCAACTCTAGGAC
1 GAATTTTTTATGGCTAGGATAGAATGTACATGACTGGTTAAGGAGGATAGAACCAACTCCAGGAC
*
1991934 TTGCCTCTTTGAAACCCTTGAATACATGATTGTATGTTTTCCATGCTTTAAAAACTTAGAAATTT
66 TTGCCTCTTTGAAACCCTTGAATACATGATTGTATGTTTTCCATACTTTAAAAACTTAGAAATTT
*
1991999 TGTATAAGATAATTCTTAAAATGTCGTGGCATAAAACTGTGAATGATGAAACCCCGCATAAAAAA
131 TGTATAAGAGAATTCTTAAAATGTCGTGGCATAAAACTGTGAATGATGAAACCCCGCAT------
1992064 AGAAAAAAATTGATGAAAAATTAAAAAAATGAAAATGAATGAGTGAAGTTATAAATAAATGCCTC
190 ---AAAAAATTGATGAAAAATTAAAAAAATGAAAATGAATGAGTGAAGTTATAAATAAATGCCTC
* * *
1992129 GGCATATTTGTAGAGGGCCACTCCGTTATGCCATGACATATGAGTGAACGAAAGATGTCACGGGA
252 GGCATATCTATAGAGGGACACTCCGTTATGCCATGACATATGAGTGAACGAAAGATGTCACGGGA
1992194 TGACTCTACCTGACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTA
317 TGACTCTACCTGACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTA
1992259 GGTGTGATAGGCTGACTCCCCTCATAGCA
382 GGTGTGATAGGCTGACTCCCCTCATAGCA
1992288 GAATT
1 GAATT
1992293 AATGAAACAA
Statistics
Matches: 406, Mismatches: 9, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
410 185 0.46
419 221 0.54
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (410 bp):
GAATTTTTTATGGCTAGGATAGAATGTACATGACTGGTTAAGGAGGATAGAACCAACTCCAGGAC
TTGCCTCTTTGAAACCCTTGAATACATGATTGTATGTTTTCCATACTTTAAAAACTTAGAAATTT
TGTATAAGAGAATTCTTAAAATGTCGTGGCATAAAACTGTGAATGATGAAACCCCGCATAAAAAA
TTGATGAAAAATTAAAAAAATGAAAATGAATGAGTGAAGTTATAAATAAATGCCTCGGCATATCT
ATAGAGGGACACTCCGTTATGCCATGACATATGAGTGAACGAAAGATGTCACGGGATGACTCTAC
CTGACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGGTGTGATA
GGCTGACTCCCCTCATAGCA
Found at i:1995048 original size:27 final size:27
Alignment explanation
Indices: 1995010--1995062 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1995000 ATTTTCACGG
1995010 GATCTCTGATCATGACCGAGAAATCCA
1 GATCTCTGATCATGACCGAGAAATCCA
*
1995037 GATCTCTGATCATGACCTAGAAATCC
1 GATCTCTGATCATGACCGAGAAATCC
1995063 GCCTGGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (27 bp):
GATCTCTGATCATGACCGAGAAATCCA
Found at i:1998203 original size:12 final size:12
Alignment explanation
Indices: 1998188--1998220 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1998178 AAGAAGTGCT
*
1998188 AGAAGAAGCACC
1 AGAAGAAGAACC
1998200 AGAAGAAGAACC
1 AGAAGAAGAACC
1998212 AGAAGAAGA
1 AGAAGAAGA
1998221 GGATAAAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.15, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAACC
Found at i:2003215 original size:20 final size:20
Alignment explanation
Indices: 2003190--2003232 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2003180 TCTAAGAGCC
* *
2003190 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
2003210 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
2003230 CAT
1 CAT
2003233 GAGGTAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:2008152 original size:54 final size:54
Alignment explanation
Indices: 2008089--2008320 Score: 304
Period size: 54 Copynumber: 4.2 Consensus size: 54
2008079 GTTATATCAG
** * **
2008089 ATAGGCACTAAGTGTGCAACCCAC-ATAATTTGTCATATGTTGATGAATGACTGT
1 ATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCAT
* *
2008143 GTAGGCACTAAGTGTGCATGCAACCCAAGAAATTCATCATATGTTGATGAACGACCAT
1 ATAGGCACTAA--GTG--TGCAACCCACGAAATTCATCATATGTTGATGAACGACCAT
*
2008201 ATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCAT
1 ATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCAT
* * *
2008255 ATAGGCACTAAGTGTGCAACTCACGAAATTTATCATATGTTGATGAACGACCGT
1 ATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCAT
*
2008309 ATAAGCACTAAG
1 ATAGGCACTAAG
2008321 GGGCTGTTTG
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
54 110 0.70
56 6 0.04
58 41 0.26
59 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (54 bp):
ATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCAT
Found at i:2016750 original size:54 final size:54
Alignment explanation
Indices: 2016665--2017174 Score: 677
Period size: 54 Copynumber: 9.4 Consensus size: 54
2016655 CTATGTGTAC
* *
2016665 TATAGGCACTAAGTGTGTAACACAC-GAAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * * *
2016719 TATAGGCACTAAGTGTGTAACCTACATAATTCATCATATGTTGATGAAAGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * *
2016773 TGTAAGCACTAAGTGTGCAACCCAAAGAATTCATCATATGTTGATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
2016827 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * *
2016881 TATAGGCACCAAGTGCGCAACCCAC-GAAATTCATCATATGTTGATGAACGACCC
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * * * *
2016935 TACAAGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAAAGACCA
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
*
2016989 TATAGGCACTAAGTGTGCAACCCAC-GAAATTCATCATATGTTGATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* *
2017043 TATAAGG-ACTAAGTGCGCAACCCACGGAATTCATCATATGTTGATGAACGACCG
1 TAT-AGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
** * * * *
2017097 TATAGGCACTAAGTGTAAAACCCATAGAATTCATCATATATTGATGAATGACTG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * *
2017151 TATCGACACTATGTGTGCACCCCA
1 TATAGGCACTAAGTGTGCAACCCA
2017175 GTGAACTTAT
Statistics
Matches: 404, Mismatches: 45, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.01
54 396 0.98
55 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
Found at i:2019576 original size:17 final size:17
Alignment explanation
Indices: 2019554--2019587 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2019544 CAAGATCATA
* *
2019554 TTATAATAAATATTAAT
1 TTATAACAAATAATAAT
2019571 TTATAACAAATAATAAT
1 TTATAACAAATAATAAT
2019588 AATTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATAACAAATAATAAT
Found at i:2020819 original size:2 final size:2
Alignment explanation
Indices: 2020807--2020839 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2020797 AAAATAGCAA
2020807 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2020840 TAGAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2021042 original size:27 final size:27
Alignment explanation
Indices: 2021012--2021108 Score: 108
Period size: 25 Copynumber: 3.5 Consensus size: 27
2021002 TTTTTTTAAT
*
2021012 TATATATTTTATATTTTCAAAACTATA
1 TATATATTATATATTTTCAAAACTATA
2021039 TATATATTATA-ATTTT-AAAACTATA
1 TATATATTATATATTTTCAAAACTATA
* * *
2021064 TATATATGCCATATATTTTCAAAACCATGT
1 TATATAT--TATATATTTTCAAAACTAT-A
2021094 TATATATATATATAT
1 TATATAT-TATATAT
2021109 ATATATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
25 16 0.27
26 5 0.08
27 13 0.22
28 5 0.08
29 13 0.22
30 7 0.12
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (27 bp):
TATATATTATATATTTTCAAAACTATA
Found at i:2024858 original size:39 final size:39
Alignment explanation
Indices: 2024787--2024865 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
2024777 CTACAGTAAC
**
2024787 AACATAAAGACTCCATGACTGCATGGCATCTTCAGGCCA
1 AACATAAAGACTCCATGACTGCACCGCATCTTCAGGCCA
* **
2024826 AACATAAAGACTCCATGAGTGCACCGTGTCTTCAGGCCA
1 AACATAAAGACTCCATGACTGCACCGCATCTTCAGGCCA
2024865 A
1 A
2024866 TGTATAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (39 bp):
AACATAAAGACTCCATGACTGCACCGCATCTTCAGGCCA
Found at i:2026216 original size:22 final size:22
Alignment explanation
Indices: 2026191--2026252 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
2026181 CACCACAACT
*
2026191 CACATAATTTG-CACCGAAGTAC
1 CACATAATTTGTC-CCGAAGAAC
2026213 CACAT-ATTTGTCCCGAAGAAC
1 CACATAATTTGTCCCGAAGAAC
*
2026234 CACATAGTTTTGTCCCGAA
1 CACATA-ATTTGTCCCGAA
2026253 TGATCAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.51
22 6 0.17
23 11 0.31
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (22 bp):
CACATAATTTGTCCCGAAGAAC
Found at i:2026263 original size:23 final size:23
Alignment explanation
Indices: 2026211--2026309 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
2026201 GCACCGAAGT
2026211 ACCACATA--TTTGTCCCGAA-G
1 ACCACATAGGTTTGTCCCGAATG
*
2026231 AACCACATAGTTTTGTCCCGAATG
1 -ACCACATAGGTTTGTCCCGAATG
* * * * *
2026255 ATCAAATAGGATTGTTCTGAATG
1 ACCACATAGGTTTGTCCCGAATG
* *
2026278 ACCACATAGGTTTGTCCCAAAGG
1 ACCACATAGGTTTGTCCCGAATG
*
2026301 ACTACATAG
1 ACCACATAG
2026310 AATCCTCGAT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 8 0.13
23 52 0.85
24 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (23 bp):
ACCACATAGGTTTGTCCCGAATG
Found at i:2036919 original size:19 final size:20
Alignment explanation
Indices: 2036873--2036921 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
2036863 TAATAAAGGG
2036873 AATAATAAT-ATAAGTAATGA
1 AATAA-AATAATAAGTAATGA
2036893 AA-ATAAATAATAAG-AATGA
1 AATA-AAATAATAAGTAATGA
2036912 AATAAAATAA
1 AATAAAATAA
2036922 ATAAAGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATAAAATAATAAGTAATGA
Found at i:2037377 original size:19 final size:21
Alignment explanation
Indices: 2037334--2037384 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2037324 GAAACCCCTT
2037334 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
2037355 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
2037374 TGAAGATACAT
1 TGAAAATACAT
2037385 TCTCTTGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:2041374 original size:16 final size:16
Alignment explanation
Indices: 2041355--2041385 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2041345 ACATTAACAA
2041355 TTTATTTATTTAATAG
1 TTTATTTATTTAATAG
2041371 TTTATTTATTTAATA
1 TTTATTTATTTAATA
2041386 AAAATTTTGC
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:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATTTATTTAATAG
Found at i:2054015 original size:17 final size:17
Alignment explanation
Indices: 2053990--2054030 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
2053980 AAGTTTAAGG
*
2053990 CTTTCTCTCTTTGAAAT
1 CTTTTTCTCTTTGAAAT
2054007 CTTTTTCTCTTTGAAAT
1 CTTTTTCTCTTTGAAAT
2054024 CTTTTTC
1 CTTTTTC
2054031 AATACTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.05, T:0.59
Consensus pattern (17 bp):
CTTTTTCTCTTTGAAAT
Found at i:2064764 original size:82 final size:83
Alignment explanation
Indices: 2064611--2064835 Score: 225
Period size: 82 Copynumber: 2.8 Consensus size: 83
2064601 ATGGTAACTT
* *
2064611 TAGTGGCATTTTTAT-AAAAACGCCGCGACAGAGTAGTACTTTAGCGACGTTTGTTCTACAAACG
1 TAGTGGCATTTTTTTAAAAAACGCCGCAACAGAGTAGTACTTTAGCGACGTTTGTTCTACAAACG
*
2064675 CCACAATAGGTTCATCAA
66 CCACAATAGGGTCATCAA
* * *
2064693 TAGTGGCATTTTTTTAAAAAACGTCGCAACAGAGTTA-TACTTTAGC-A-GTGTTTTTATTA-AA
1 TAGTGGCATTTTTTTAAAAAACGCCGCAACAGAG-TAGTACTTTAGCGACGT-TTGTT-CTACAA
* **
2064754 ACGCCGCAATAGGGTCATGTA
63 ACGCCACAATAGGGTCATCAA
* * * * *
2064775 TAGTGGC-TTTTTTT-ACAAACTCCGCTAA-AGAGTAGTACTGTAGCGGCGTTT-TTATACAAAC
1 TAGTGGCATTTTTTTAAAAAACGCCGC-AACAGAGTAGTACTTTAGCGACGTTTGTTCTACAAAC
2064836 ACCGCTATAG
Statistics
Matches: 119, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
79 4 0.03
80 26 0.22
81 13 0.11
82 47 0.39
83 27 0.23
84 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (83 bp):
TAGTGGCATTTTTTTAAAAAACGCCGCAACAGAGTAGTACTTTAGCGACGTTTGTTCTACAAACG
CCACAATAGGGTCATCAA
Found at i:2064864 original size:41 final size:41
Alignment explanation
Indices: 2064775--2064908 Score: 144
Period size: 41 Copynumber: 3.3 Consensus size: 41
2064765 GGGTCATGTA
* * * * *
2064775 TAGTGGC-TTTTTTTACAAACTCCGCTAAAGAGTAGTACTG
1 TAGTGGCGTTTTTATACAAACACCGCTATAGACTAGTACTT
* * * *
2064815 TAGCGGCGTTTTTATACAAACACCGCTATAGACTTGAATTT
1 TAGTGGCGTTTTTATACAAACACCGCTATAGACTAGTACTT
* * * *
2064856 TAGTGGCGTTTTTATACAAACGCCACTATAAACTCGTACTT
1 TAGTGGCGTTTTTATACAAACACCGCTATAGACTAGTACTT
2064897 TAGTGGCGTTTT
1 TAGTGGCGTTTT
2064909 CATTTACAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 6 0.08
41 71 0.92
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACACCGCTATAGACTAGTACTT
Found at i:2068383 original size:43 final size:43
Alignment explanation
Indices: 2068335--2068889 Score: 309
Period size: 42 Copynumber: 13.1 Consensus size: 43
2068325 AAGGTAATTA
* * *
2068335 GCGGCGTTTGTTCCAAAAACACCACTATAGACCTAGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
* * * * *
2068378 GCGGCGTTTGTACCAAAAAACGCCATTATATAT-TTGACCTTTA
1 GCGGCGTTTGTTCC-AAAAACGCCACTATAGATCTAGACCTTTT
** * * * *
2068421 GCGGCGTTTGTT-CAAAATTG-CAGCTATATATCTTGACATATT
1 GCGGCGTTTGTTCCAAAAACGCCA-CTATAGATCTAGACCTTTT
* * ** * *
2068463 ACGGCATTT-TTTGAACAAACGCCGCTAAATG-TCTA-ACCTTTT
1 GCGGCGTTTGTTCCAA-AAACGCCACTATA-GATCTAGACCTTTT
* *
2068505 ACGGCGTTTGTTCCAAAAACGCCACTATAGATCT-GACCTTTA
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
* *
2068547 GCGGCGTTTGTTCCAAAAACACCGCTATAGATCTA-ACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
** * * * *
2068589 GCGGCGTTTGTT-CAAAAA-TACAGCTATATATCTTGACATATT
1 GCGGCGTTTGTTCCAAAAACGCCA-CTATAGATCTAGACCTTTT
* ** * * *
2068631 ACGGCGTTT-TTTGAACAAATGCCGCTAAATG-TCTA-ACCTTTT
1 GCGGCGTTTGTTCCAA-AAACGCCACTATA-GATCTAGACCTTTT
* * * *
2068673 GCGGCGTTTGTTCCAAAAACGCCGCTATATATCTTGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
* * ** * ** * *
2068716 GCAGCGTTTTTTTGAACAAACACTGCTATATATATATGACCTTTT
1 GCGGCGTTTGTTCCAA-AAACGCCACTATAGATCTA-GACCTTTT
* * * ** * *
2068761 GCAGCGTTTGTTCAAAAAACGCCGCTATTTATCTTGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
* * *
2068804 GCGGC----GTTCAAAAAACGCCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
* * * * * * *
2068843 GCGACGTTTGTT-CAATAACGCCGCAATAGATATTGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
2068885 GCGGC
1 GCGGC
2068890 ATTTTTTGTT
Statistics
Matches: 394, Mismatches: 92, Indels: 53
0.73 0.17 0.10
Matches are distributed among these distances:
39 34 0.09
40 3 0.01
41 32 0.08
42 169 0.43
43 91 0.23
44 45 0.11
45 20 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACGCCACTATAGATCTAGACCTTTT
Found at i:2068510 original size:84 final size:84
Alignment explanation
Indices: 2068414--2068811 Score: 419
Period size: 84 Copynumber: 4.7 Consensus size: 84
2068404 TATATATTTG
* ** *
2068414 ACCTTTAGCGGCGTTTGTTCAAAATTGCAGCTATATATCTTGACATATTACGGCATTTTTTGAAC
1 ACCTTTTGCGGCGTTTGTTCAAAAACGCAGCTATATATCTTGACATATTACGGCGTTTTTTGAAC
*
2068479 AAACGCCGCTAAATGTCTA
66 AAACACCGCTAAATGTCTA
* * * *
2068498 ACCTTTTACGGCGTTTGTTCCAAAAACGCCA-CTATAGATC-TGACCT-TTAGCGGCGTTTGTTC
1 ACCTTTTGCGGCGTTTGTT-CAAAAACG-CAGCTATATATCTTGACATATTA-CGGCGTTT-TTT
* *
2068560 CAA-AAACACCGCTATA-GATCTA
62 GAACAAACACCGCTAAATG-TCTA
**
2068582 ACCTTTTGCGGCGTTTGTTCAAAAATACAGCTATATATCTTGACATATTACGGCGTTTTTTGAAC
1 ACCTTTTGCGGCGTTTGTTCAAAAACGCAGCTATATATCTTGACATATTACGGCGTTTTTTGAAC
**
2068647 AAATGCCGCTAAATGTCTA
66 AAACACCGCTAAATGTCTA
* * * *
2068666 ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATATATCTTGACCTATTGCAGCGTTTTTTTGA
1 ACCTTTTGCGGCGTTTGTT-CAAAAACGCAGCTATATATCTTGACATATTACGGCG-TTTTTTGA
* * * *
2068731 ACAAACACTGCTATATATATATG
64 ACAAACACCGCTA-A-ATGTCTA
* * * * *
2068754 ACCTTTTGCAGCGTTTGTTCAAAAAACGCCGCTATTTATCTTGACCTATTGCGGCGTT
1 ACCTTTTGCGGCGTTTGTTC-AAAAACGCAGCTATATATCTTGACATATTACGGCGTT
2068812 CAAAAAACGC
Statistics
Matches: 263, Mismatches: 36, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
82 2 0.01
83 22 0.08
84 108 0.41
85 52 0.20
86 20 0.08
87 4 0.02
88 55 0.21
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (84 bp):
ACCTTTTGCGGCGTTTGTTCAAAAACGCAGCTATATATCTTGACATATTACGGCGTTTTTTGAAC
AAACACCGCTAAATGTCTA
Found at i:2068620 original size:168 final size:167
Alignment explanation
Indices: 2068336--2068778 Score: 580
Period size: 168 Copynumber: 2.6 Consensus size: 167
2068326 AGGTAATTAG
* * * * *
2068336 CGGCGTTTGTTCCAAAAACACCACTATAGACCTAGATCTTTTGCGGCGTTTGTACCAAAAAACGC
1 CGGCGTTTGTTCCAAAAACGCCACTATAGATCT-GA-CCTTTGCGGCGTTTGTTCC-AAAAACAC
** * * * * *
2068401 CATTATATATTTGACCTTTAGCGGCGTTTGTTCAAAATTGCAGCTATATATCTTGACATATTACG
63 CGCTATATATATAACCTTTTGCGGCGTTTGTTCAAAAATACAGCTATATATCTTGACATATTACG
2068466 GCATTTTTTGAACAAACGCCGCTAAATGTCTAACCTTTTA
128 GCATTTTTTGAACAAACGCCGCTAAATGTCTAACCTTTTA
2068506 CGGCGTTTGTTCCAAAAACGCCACTATAGATCTGACCTTTAGCGGCGTTTGTTCCAAAAACACCG
1 CGGCGTTTGTTCCAAAAACGCCACTATAGATCTGACCTTT-GCGGCGTTTGTTCCAAAAACACCG
* *
2068571 CTATAGATCTAACCTTTTGCGGCGTTTGTTCAAAAATACAGCTATATATCTTGACATATTACGGC
65 CTATATATATAACCTTTTGCGGCGTTTGTTCAAAAATACAGCTATATATCTTGACATATTACGGC
* * *
2068636 GTTTTTTGAACAAATGCCGCTAAATGTCTAACCTTTTG
130 ATTTTTTGAACAAACGCCGCTAAATGTCTAACCTTTTA
* * * * **
2068674 CGGCGTTTGTTCCAAAAACGCCGCTATATATCTTGACCTATTGCAGCGTTTTTTTGAACAAACAC
1 CGGCGTTTGTTCCAAAAACGCCACTATAGATC-TGACCT-TTGCGGCGTTTGTTCCAA-AAACAC
* *
2068739 TGCTATATATATATGACCTTTTGCAGCGTTTGTTCAAAAA
63 CGCTATATATATA--ACCTTTTGCGGCGTTTGTTCAAAAA
2068779 ACGCCGCTAT
Statistics
Matches: 241, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
168 135 0.56
169 33 0.14
170 49 0.20
172 24 0.10
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (167 bp):
CGGCGTTTGTTCCAAAAACGCCACTATAGATCTGACCTTTGCGGCGTTTGTTCCAAAAACACCGC
TATATATATAACCTTTTGCGGCGTTTGTTCAAAAATACAGCTATATATCTTGACATATTACGGCA
TTTTTTGAACAAACGCCGCTAAATGTCTAACCTTTTA
Found at i:2068824 original size:39 final size:39
Alignment explanation
Indices: 2068770--2068850 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
2068760 TGCAGCGTTT
** * *
2068770 GTTCAAAAAACGCCGCTATTTATCTTGACCTATTGCGGC
1 GTTCAAAAAACGCCGCTATAGATCTCGACCTATTGCGAC
*
2068809 GTTCAAAAAACGCCGCTATAGATCTCGACCTTTTGCGAC
1 GTTCAAAAAACGCCGCTATAGATCTCGACCTATTGCGAC
2068848 GTT
1 GTT
2068851 TGTTCAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (39 bp):
GTTCAAAAAACGCCGCTATAGATCTCGACCTATTGCGAC
Found at i:2069844 original size:17 final size:18
Alignment explanation
Indices: 2069817--2069853 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2069807 TTGCGTCGAC
2069817 TATAGGAAATGGTTAGGG
1 TATAGGAAATGGTTAGGG
*
2069835 TATA-GAAATGGTTATGG
1 TATAGGAAATGGTTAGGG
2069852 TA
1 TA
2069854 AAGGTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (18 bp):
TATAGGAAATGGTTAGGG
Found at i:2070103 original size:5 final size:5
Alignment explanation
Indices: 2070095--2070122 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2070085 CTTTGAATTC
2070095 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
2070123 TGTACTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:2076026 original size:17 final size:16
Alignment explanation
Indices: 2076000--2076034 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2075990 CTTTAATTAG
*
2076000 ATGTTTATATGTTTTAC
1 ATGTTGATATG-TTTAC
2076017 ATGTTGATATGTTTAC
1 ATGTTGATATGTTTAC
2076033 AT
1 AT
2076035 ATGTTCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (16 bp):
ATGTTGATATGTTTAC
Found at i:2080425 original size:225 final size:225
Alignment explanation
Indices: 2080022--2080469 Score: 781
Period size: 225 Copynumber: 2.0 Consensus size: 225
2080012 CGAATGACCA
*
2080022 TTCTTTCCATTCGGCAAAAAACCGAAGAAAGTCTTTACGACTATTGGGAATGATTTAAAAAGCTT
1 TTCTTTCCATTCGGCAAAAAACCGAAGAAAGTCTTTACGACTATTGGGAACGATTTAAAAAGCTT
* * *
2080087 TGCGCTCGTTGTCCGCAACACGAATTAAGTGAGCAAACGTTACTTCAATACTTTTATGAAGGTCT
66 TGCGCACGTTGTCCACAACACAAATTAAGTGAGCAAACGTTACTTCAATACTTTTATGAAGGTCT
* **
2080152 TTTACCAATGGAAATGAAAATGGTAGATGCCACAAGCGGAGGAGCATTAATCAACATGACCCCAA
131 TTTACCAATGGAAATGAAAATGGTAGATGCCACAAGCAGAAAAGCATTAATCAACATGACCCCAA
2080217 CAACAGCGAGAGAATTGATTTCAACCATCG
196 CAACAGCGAGAGAATTGATTTCAACCATCG
*
2080247 TTCTTTCCATTCGGCAAAAAACCGAAGAAAGTCTTTATGACTATTGGGAACGATTTAAAAAGCTT
1 TTCTTTCCATTCGGCAAAAAACCGAAGAAAGTCTTTACGACTATTGGGAACGATTTAAAAAGCTT
2080312 TGCGCACGTTGTCCACAACACAAATTAAGTGAAG-AAACGTTACTTCAATACTTTTATGAAGGTC
66 TGCGCACGTTGTCCACAACACAAATTAAGTG-AGCAAACGTTACTTCAATACTTTTATGAAGGTC
* *
2080376 TTTTACCAATGGAAATGAAAATGGTAGATGCCACCAGCAGAAAAGCATTAATCAACATGATCCCA
130 TTTTACCAATGGAAATGAAAATGGTAGATGCCACAAGCAGAAAAGCATTAATCAACATGACCCCA
*
2080441 ACAACATCGAGAGAATTGATTTCAACCAT
195 ACAACAGCGAGAGAATTGATTTCAACCAT
2080470 GGCATCCAAC
Statistics
Matches: 211, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
225 209 0.99
226 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (225 bp):
TTCTTTCCATTCGGCAAAAAACCGAAGAAAGTCTTTACGACTATTGGGAACGATTTAAAAAGCTT
TGCGCACGTTGTCCACAACACAAATTAAGTGAGCAAACGTTACTTCAATACTTTTATGAAGGTCT
TTTACCAATGGAAATGAAAATGGTAGATGCCACAAGCAGAAAAGCATTAATCAACATGACCCCAA
CAACAGCGAGAGAATTGATTTCAACCATCG
Found at i:2084636 original size:24 final size:24
Alignment explanation
Indices: 2084609--2084655 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2084599 AGTCTAAATA
*
2084609 ACAACATAATTTAAGGTTAAAAAG
1 ACAACATAATTTAAGATTAAAAAG
*
2084633 ACAACTTAATTTAAGATTAAAAA
1 ACAACATAATTTAAGATTAAAAA
2084656 ACATAAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.28
Consensus pattern (24 bp):
ACAACATAATTTAAGATTAAAAAG
Found at i:2092612 original size:76 final size:76
Alignment explanation
Indices: 2092484--2092631 Score: 251
Period size: 76 Copynumber: 1.9 Consensus size: 76
2092474 GGAAAATCTG
* * * *
2092484 AAGAAGCTATGAAAATGTTAAAGTGGTAATTTAGTTTTCTAGAAAGTCAGGAGAATATTATAGTA
1 AAGAAGCCATGAAAATGTTAAAGTAGTAATTCAATTTTCTAGAAAGTCAGGAGAATATTATAGTA
2092549 TTATTCACATA
66 TTATTCACATA
*
2092560 AAGAAGCCATGAAAATGTTAAAGTAGTAATTCAATTTTCTAGAAAGTTAGGAGAATATTATAGTA
1 AAGAAGCCATGAAAATGTTAAAGTAGTAATTCAATTTTCTAGAAAGTCAGGAGAATATTATAGTA
2092625 TTATTCA
66 TTATTCA
2092632 TATATGTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.34
Consensus pattern (76 bp):
AAGAAGCCATGAAAATGTTAAAGTAGTAATTCAATTTTCTAGAAAGTCAGGAGAATATTATAGTA
TTATTCACATA
Found at i:2093175 original size:33 final size:33
Alignment explanation
Indices: 2093126--2093192 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2093116 TAATTTTGGA
*
2093126 AATACAATTATCATTTATGGTTTTATATGTGTT
1 AATACAATTATAATTTATGGTTTTATATGTGTT
* *
2093159 AATATAATTATAATTTATGGTTTTATTTGTGTT
1 AATACAATTATAATTTATGGTTTTATATGTGTT
2093192 A
1 A
2093193 TAGATGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (33 bp):
AATACAATTATAATTTATGGTTTTATATGTGTT
Found at i:2096093 original size:45 final size:44
Alignment explanation
Indices: 2096043--2096139 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
2096033 TTTATTTTTG
2096043 AATATTAA-AGATAATTATATATT-TTTATATATTTTAAATTAAAAT
1 AATATTAATA-AT-ATTATATATTGTTTA-ATATTTTAAATTAAAAT
* *
2096088 AATATTGAATAATATTGTATATTGTTTAATATTTTAAATTTAAAT
1 AATATT-AATAATATTATATATTGTTTAATATTTTAAATTAAAAT
*
2096133 GATATTA
1 AATATTA
2096140 TTATTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
44 1 0.02
45 36 0.78
46 8 0.17
47 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (44 bp):
AATATTAATAATATTATATATTGTTTAATATTTTAAATTAAAAT
Found at i:2098758 original size:14 final size:14
Alignment explanation
Indices: 2098739--2098766 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2098729 AATGGAATCA
2098739 AAGAATGCATCATT
1 AAGAATGCATCATT
2098753 AAGAATGCATCATT
1 AAGAATGCATCATT
2098767 CTTTGAAAAT
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AAGAATGCATCATT
Found at i:2105390 original size:11 final size:11
Alignment explanation
Indices: 2105367--2105456 Score: 94
Period size: 11 Copynumber: 8.4 Consensus size: 11
2105357 TTAGTATTTA
*
2105367 TTATTAGTCTG
1 TTATTAGTTTG
*
2105378 TTATCAGTTTG
1 TTATTAGTTTG
* *
2105389 TTA-TGGTTTT
1 TTATTAGTTTG
* *
2105399 TTATCAGCTTG
1 TTATTAGTTTG
2105410 TTATTAGTTTG
1 TTATTAGTTTG
*
2105421 TTA-TGGTTTG
1 TTATTAGTTTG
*
2105431 TTATTAGCTTG
1 TTATTAGTTTG
2105442 TTATTAGTTTG
1 TTATTAGTTTG
2105453 TTAT
1 TTAT
2105457 GGTGTGTTGC
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
10 16 0.26
11 46 0.74
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.59
Consensus pattern (11 bp):
TTATTAGTTTG
Found at i:2105402 original size:21 final size:22
Alignment explanation
Indices: 2105367--2105456 Score: 103
Period size: 21 Copynumber: 4.2 Consensus size: 22
2105357 TTAGTATTTA
*
2105367 TTATTAGTCTGTTATCAGTTTG
1 TTATTAGTTTGTTATCAGTTTG
* * *
2105389 TTA-TGGTTTTTTATCAGCTTG
1 TTATTAGTTTGTTATCAGTTTG
*
2105410 TTATTAGTTTGTTAT-GGTTTG
1 TTATTAGTTTGTTATCAGTTTG
* *
2105431 TTATTAGCTTGTTATTAGTTTG
1 TTATTAGTTTGTTATCAGTTTG
2105453 TTAT
1 TTAT
2105457 GGTGTGTTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 35 0.62
22 21 0.38
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.59
Consensus pattern (22 bp):
TTATTAGTTTGTTATCAGTTTG
Found at i:2105419 original size:32 final size:32
Alignment explanation
Indices: 2105376--2105464 Score: 142
Period size: 32 Copynumber: 2.8 Consensus size: 32
2105366 ATTATTAGTC
* *
2105376 TGTTATCAGTTTGTTATGGTTTTTTATCAGCT
1 TGTTATTAGTTTGTTATGGTTTGTTATCAGCT
*
2105408 TGTTATTAGTTTGTTATGGTTTGTTATTAGCT
1 TGTTATTAGTTTGTTATGGTTTGTTATCAGCT
*
2105440 TGTTATTAGTTTGTTATGGTGTGTT
1 TGTTATTAGTTTGTTATGGTTTGTT
2105465 GCTTACTTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.15, C:0.04, G:0.22, T:0.58
Consensus pattern (32 bp):
TGTTATTAGTTTGTTATGGTTTGTTATCAGCT
Found at i:2107195 original size:36 final size:36
Alignment explanation
Indices: 2106793--2107202 Score: 430
Period size: 36 Copynumber: 11.4 Consensus size: 36
2106783 AGTAAAGTTA
* *
2106793 GCATCGGCACTTCCGATTCAAGTCGAACGGAAGGAA
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* *
2106829 GCATCGGCACTTCCGATTCAAGTCAAATGAAAGGAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* * * * *
2106865 GGATCGACACTTCTGATTCAAGTCGAA-TAGAAGGAA
1 GCATCGGCACTTCCGATTCAAGTCGAACGA-AAGGAG
* * *
2106901 GCATCGGTATTTCCGATTCAAGTTGAACGAAAGGAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* * *
2106937 GGATCGACACTTCCGATTCAAGTCGAA-TAGAAGGAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGA-AAGGAG
* * **
2106973 GCATCGACACTTCCGATTCAAGTCGAACGGAATAAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* *
2107009 GCATCGGCACTTCCAATTCAAGTCGAATGAAAGGAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* * * **
2107045 GCATCAGCACTTCCGATTCAAATCGAACGGAATAAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* * * * *
2107081 GCATCAGCATTTCAGATTCAAATCGAACGGAAGGAG
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* * * *
2107117 GCATCGGCACTTCCGATTCAAATCAAACGGAAGGAA
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
* * *
2107153 GCATCGCCACTTCCGATTCAAGTCGAACGAAAAGAT
1 GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
*
2107189 GTATC-GCACTTCCG
1 GCATCGGCACTTCCG
2107203 TTTCGAGTGT
Statistics
Matches: 311, Mismatches: 59, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
35 10 0.03
36 300 0.96
37 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (36 bp):
GCATCGGCACTTCCGATTCAAGTCGAACGAAAGGAG
Found at i:2107304 original size:11 final size:11
Alignment explanation
Indices: 2107285--2107374 Score: 103
Period size: 11 Copynumber: 8.4 Consensus size: 11
2107275 TTAGTATTTA
2107285 TTATTAGTTTG
1 TTATTAGTTTG
*
2107296 TTATCAGTTTG
1 TTATTAGTTTG
* *
2107307 TTA-TGGTTTT
1 TTATTAGTTTG
* *
2107317 TTATCAGCTTG
1 TTATTAGTTTG
2107328 TTATTAGTTTG
1 TTATTAGTTTG
*
2107339 TTA-TGGTTTG
1 TTATTAGTTTG
*
2107349 TTATTAGCTTG
1 TTATTAGTTTG
2107360 TTATTAGTTTG
1 TTATTAGTTTG
2107371 TTAT
1 TTAT
2107375 GGTGTGTTGC
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
10 16 0.25
11 47 0.75
ACGTcount: A:0.17, C:0.04, G:0.19, T:0.60
Consensus pattern (11 bp):
TTATTAGTTTG
Found at i:2107315 original size:21 final size:22
Alignment explanation
Indices: 2107285--2107374 Score: 112
Period size: 21 Copynumber: 4.2 Consensus size: 22
2107275 TTAGTATTTA
2107285 TTATTAGTTTGTTATCAGTTTG
1 TTATTAGTTTGTTATCAGTTTG
* * *
2107307 TTA-TGGTTTTTTATCAGCTTG
1 TTATTAGTTTGTTATCAGTTTG
*
2107328 TTATTAGTTTGTTAT-GGTTTG
1 TTATTAGTTTGTTATCAGTTTG
* *
2107349 TTATTAGCTTGTTATTAGTTTG
1 TTATTAGTTTGTTATCAGTTTG
2107371 TTAT
1 TTAT
2107375 GGTGTGTTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 36 0.63
22 21 0.37
ACGTcount: A:0.17, C:0.04, G:0.19, T:0.60
Consensus pattern (22 bp):
TTATTAGTTTGTTATCAGTTTG
Found at i:2107337 original size:32 final size:32
Alignment explanation
Indices: 2107293--2107382 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
2107283 TATTATTAGT
* *
2107293 TTGTTATCAGTTTGTTATGGTTTTTTATCAGC
1 TTGTTATTAGTTTGTTATGGTTTGTTATCAGC
*
2107325 TTGTTATTAGTTTGTTATGGTTTGTTATTAGC
1 TTGTTATTAGTTTGTTATGGTTTGTTATCAGC
*
2107357 TTGTTATTAGTTTGTTATGGTGTGTT
1 TTGTTATTAGTTTGTTATGGTTTGTT
2107383 GCTTACTTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.14, C:0.04, G:0.22, T:0.59
Consensus pattern (32 bp):
TTGTTATTAGTTTGTTATGGTTTGTTATCAGC
Found at i:2118679 original size:18 final size:18
Alignment explanation
Indices: 2118656--2118696 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2118646 ACCGGTCATA
2118656 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2118674 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2118692 ACCCG
1 ACCCG
2118697 TTGACCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.51, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2118709 original size:23 final size:24
Alignment explanation
Indices: 2118683--2118728 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
2118673 GACCCGACCC
*
2118683 GACCCGTTGACC-CGTTGACCATT
1 GACCCATTGACCGCGTTGACCATT
2118706 GACCCATTGACCGGCGTTGACCA
1 GACCCATTGACC-GCGTTGACCA
2118729 CTGTTGACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.20, C:0.35, G:0.24, T:0.22
Consensus pattern (24 bp):
GACCCATTGACCGCGTTGACCATT
Found at i:2120048 original size:18 final size:18
Alignment explanation
Indices: 2120025--2120063 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2120015 TGTTCGAAAG
*
2120025 GATTGAAGTAAATGATAA
1 GATTGAAGTAAATAATAA
*
2120043 GATTGAATTAAATAATAA
1 GATTGAAGTAAATAATAA
2120061 GAT
1 GAT
2120064 CGGAAGGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (18 bp):
GATTGAAGTAAATAATAA
Found at i:2121259 original size:24 final size:23
Alignment explanation
Indices: 2121228--2121299 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
2121218 GATAAATTAC
2121228 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTCTGTT-TGATTTCTGAT
* * *
2121252 CTGGATTCTGTTATGATATATGAT
1 CTGAATTCTGTT-TGATTTCTGAT
*
2121276 CTGAATTCTATTTCGATTTCTGAT
1 CTGAATTCTGTTT-GATTTCTGAT
2121300 ATCTCCATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 1 0.03
24 38 0.97
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.49
Consensus pattern (23 bp):
CTGAATTCTGTTTGATTTCTGAT
Found at i:2121263 original size:48 final size:48
Alignment explanation
Indices: 2121208--2121299 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
2121198 TCCGACTTGA
* * *
2121208 ATTCTGTTTTGATAAATTACCTGAATTCT-GTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATAAATGACCTGAATTCTATTTC-GATTTCTGATCTGG
* *
2121256 ATTCTGTTATGATATATGATCTGAATTCTATTTCGATTTCTGAT
1 ATTCTGTTATGATAAATGACCTGAATTCTATTTCGATTTCTGAT
2121300 ATCTCCATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 35 0.92
49 3 0.08
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (48 bp):
ATTCTGTTATGATAAATGACCTGAATTCTATTTCGATTTCTGATCTGG
Found at i:2122993 original size:198 final size:198
Alignment explanation
Indices: 2122649--2123059 Score: 588
Period size: 198 Copynumber: 2.1 Consensus size: 198
2122639 TAAGAAAGCG
* *
2122649 ATTTCCAAAGTTTCTTACCCAATAAACTATTTTAAAAATTGGTAAGTCCTTCGAGCCATCAGTAA
1 ATTTCCAAAGTTTCTTACCCAATAAACTATTTCAAAAATTGATAAGTCCTTCGAGCCATCAGTAA
* * * * *
2122714 GTCTTTCGAGCATGATGGTTAAATCCTTCGGGTCATCTGTCAGTCTTTTGAGCAAGATGATAAGT
66 GTCATTCGAGCATGATGATTAAATACTTCGGGTCATCTGTAAGTCTTTTGAACAAGATGATAAGT
* * * *
2122779 CCTTTGGGTAATCTATAAGACCTTTGGGCAAAATGTTTTCACATGATTTTCGAAAAATTGAAAAA
131 CCTTTGGGCAATCTATAAGACCTTAGGGCAAAATGTTTTCACATGATTTTCAAAAAAATGAAAAA
*
2122844 GTA
196 GAA
* * * * * *
2122847 ATTTCCAAAGTTTCTTACCCAGTAGAGTATTTCCAAAATTGATAAGTCCTTCGGGTCATCAGTAA
1 ATTTCCAAAGTTTCTTACCCAATAAACTATTTCAAAAATTGATAAGTCCTTCGAGCCATCAGTAA
*
2122912 GTCATTCGAGCATGATGATTAAATATTTCGGGTCATCTGTAAGTCTTTTGAACAAGATGATAAGT
66 GTCATTCGAGCATGATGATTAAATACTTCGGGTCATCTGTAAGTCTTTTGAACAAGATGATAAGT
* * * * * *
2122977 CTTTTGGGCCATCTATAAGACCTTAGGTCAAGATGTTTTCATATGATTTTCAAAAAAATGAGAAA
131 CCTTTGGGCAATCTATAAGACCTTAGGGCAAAATGTTTTCACATGATTTTCAAAAAAATGAAAAA
2123042 GAA
196 GAA
*
2123045 ATTTTCAAAGTTTCT
1 ATTTCCAAAGTTTCT
2123060 CATTCAATGT
Statistics
Matches: 187, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
198 187 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (198 bp):
ATTTCCAAAGTTTCTTACCCAATAAACTATTTCAAAAATTGATAAGTCCTTCGAGCCATCAGTAA
GTCATTCGAGCATGATGATTAAATACTTCGGGTCATCTGTAAGTCTTTTGAACAAGATGATAAGT
CCTTTGGGCAATCTATAAGACCTTAGGGCAAAATGTTTTCACATGATTTTCAAAAAAATGAAAAA
GAA
Found at i:2123173 original size:20 final size:20
Alignment explanation
Indices: 2123148--2123265 Score: 53
Period size: 20 Copynumber: 5.8 Consensus size: 20
2123138 CCAAAATTGA
2123148 TAAGTCCTTCAGGCCATCTG
1 TAAGTCCTTCAGGCCATCTG
* *
2123168 TAAGTCTTTC-GAGCATGATACT-
1 TAAGTCCTTCAG-GC--CAT-CTG
*
2123190 TAAATCCTTCAGGCCATCTG
1 TAAGTCCTTCAGGCCATCTG
* * * * **
2123210 TCAGTCTTTC-GATCAAGATG
1 TAAGTCCTTCAG-GCCATCTG
* *
2123230 ATAAGTCCTTCGGGCCATCTA
1 -TAAGTCCTTCAGGCCATCTG
*
2123251 TAAGACCTTCAGGCC
1 TAAGTCCTTCAGGCC
2123266 GGATGTTTTG
Statistics
Matches: 68, Mismatches: 21, Indels: 18
0.64 0.20 0.17
Matches are distributed among these distances:
19 4 0.06
20 37 0.54
21 11 0.16
22 13 0.19
23 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
TAAGTCCTTCAGGCCATCTG
Found at i:2123443 original size:199 final size:199
Alignment explanation
Indices: 2123091--2123458 Score: 594
Period size: 199 Copynumber: 1.8 Consensus size: 199
2123081 GAAATTTTTG
*
2123091 AAAAGCAAGAAAGCGATTTCCAAAGTTTATTACCCAATAGACTATTTCCAAAATTGATAAGTCCT
1 AAAAGAAAGAAAGCGATTTCCAAAGTTTATTACCCAATAGACTATTTCCAAAATTGATAAGTCCT
* *
2123156 TCAGGCCATCTGTAAGTCTTTCGAGCATGATACTTAAATCCTTCAGGCCATCTGTCAGTCTTTCG
66 TCAGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCAGGCCATCTATCAGTCTTTCG
*
2123221 ATCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGGCCGGATGTTTTGACGTGATTTT
131 AGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGGCCGGATGTTTTGACGTGATTTT
2123286 CAAA
196 CAAA
* * *
2123290 AAAAGAAAGAAAGCGATTTCCAAAGTTTATTACCCAGTAGATTATTTCCAAATTTGATAAGTCCT
1 AAAAGAAAGAAAGCGATTTCCAAAGTTTATTACCCAATAGACTATTTCCAAAATTGATAAGTCCT
* * * *
2123355 TCAGGCCATCAGTAAGTCTTTCGAGCATGATGA-TTAAATCCTTCGGGTCATCTATCAGTTTTTT
66 TCAGGCCATCAGTAAGTCTTTCGAGCATGAT-ACTTAAATCCTTCAGGCCATCTATCAGTCTTTC
* * *
2123419 GAGCAAGATGATAAGTCTTTCGGGCCATCTGTATGACCTT
130 GAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTT
2123459 TGGGCAAGAT
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 153 0.99
200 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (199 bp):
AAAAGAAAGAAAGCGATTTCCAAAGTTTATTACCCAATAGACTATTTCCAAAATTGATAAGTCCT
TCAGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCAGGCCATCTATCAGTCTTTCG
AGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGGCCGGATGTTTTGACGTGATTTT
CAAA
Found at i:2123448 original size:41 final size:42
Alignment explanation
Indices: 2123344--2123448 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
2123334 TTTCCAAATT
* *
2123344 TGATAAGTCCTTCAGGCCATC-AGTAAGTCTTTCGAGCATGA
1 TGATAAGTCCTTCGGGCCATCTAGTAAGTCTTTCGAGCAAGA
* * * * *
2123385 TGATTAAATCCTTCGGGTCATCTA-TCAGTTTTTTGAGCAAGA
1 TGA-TAAGTCCTTCGGGCCATCTAGTAAGTCTTTCGAGCAAGA
*
2123427 TGATAAGTCTTTCGGGCCATCT
1 TGATAAGTCCTTCGGGCCATCT
2123449 GTATGACCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 19 0.37
42 32 0.62
43 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (42 bp):
TGATAAGTCCTTCGGGCCATCTAGTAAGTCTTTCGAGCAAGA
Found at i:2123897 original size:45 final size:45
Alignment explanation
Indices: 2123815--2124025 Score: 192
Period size: 45 Copynumber: 4.7 Consensus size: 45
2123805 ACATATTGAT
* * * * * *
2123815 AGAGGAGTCAATCTTTTAGAGTTGTCCTACTTAACTTTCTCGTGA
1 AGAGAAGTCAATCTTTTAGTGGTGTCATTCTTGACTTTCTCGTGA
* ** * *
2123860 AGAGAAGTCAACCTTTTAGTGGTGTTGTTTTTTACTTTCTCGTGA
1 AGAGAAGTCAATCTTTTAGTGGTGTCATTCTTGACTTTCTCGTGA
* * * *
2123905 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGAATTTCTCGTAA
1 AGAGAAGTCAATCTTTTAGTGGTGTCATTCTTGACTTTCTCGTGA
* * * *
2123950 AGAGAAGTCAATCTTTCAGTGTTGTGATTCTTGACTTTCTC-AGA
1 AGAGAAGTCAATCTTTTAGTGGTGTCATTCTTGACTTTCTCGTGA
* * *
2123994 A-AGAATAGTCAACCTTTGAGTGATGTCATTCT
1 AGAG-A-AGTCAATCTTTTAGTGGTGTCATTCT
2124026 AAACTTGACT
Statistics
Matches: 136, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 131 0.96
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (45 bp):
AGAGAAGTCAATCTTTTAGTGGTGTCATTCTTGACTTTCTCGTGA
Found at i:2123987 original size:90 final size:90
Alignment explanation
Indices: 2123815--2124031 Score: 242
Period size: 90 Copynumber: 2.4 Consensus size: 90
2123805 ACATATTGAT
* * * * *
2123815 AGAGGAGTCAATCTTTTAGAGTTGTCCTACTTAACTTTCTCGTGAAGAGAAGTCAACCTTTTAGT
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTAACTTTCTCGTAAAGAGAAGTCAACCTTTCAGT
* * *
2123880 GGTGTTGTTTTTTACTTTCTC-GTGA
66 GGTGTTGTTCTTGACTTTCTCAG-AA
*
2123905 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTGAA-TTTCTCGTAAAGAGAAGTCAATCTTTCAG
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTT-AACTTTCTCGTAAAGAGAAGTCAACCTTTCAG
*
2123969 TGTTG-TGATTCTTGACTTTCTCAGAA
65 TGGTGTTG-TTCTTGACTTTCTCAGAA
** * * * *
2123995 AGAATAGTCAACCTTTGAGTGATGTCATTCTAAACTT
1 AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTAACTT
2124032 GACTTTCTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
89 4 0.04
90 100 0.93
91 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (90 bp):
AGAGGAGTCAATCTTTTAGTGTTGTCATTCTTAACTTTCTCGTAAAGAGAAGTCAACCTTTCAGT
GGTGTTGTTCTTGACTTTCTCAGAA
Found at i:2124086 original size:51 final size:50
Alignment explanation
Indices: 2123979--2124142 Score: 185
Period size: 51 Copynumber: 3.2 Consensus size: 50
2123969 TGTTGTGATT
* *
2123979 CTTGACTTTCTCA-GAAAGAATAGTCAACCTTTGAGT-GATGTCATTCTAAA
1 CTTGACTTTCTCATG-AAG-ATAGTCAACTTTTCAGTAGATGTCATTCTAAA
* *
2124029 CTTGACTTTCTCATGGAGATGAGTCAACTTTTCAGTAGATGTCATTCTCAA
1 CTTGACTTTCTCATGAAGAT-AGTCAACTTTTCAGTAGATGTCATTCTAAA
*
2124080 CTTGACTTTCTCATGAAGATAAGT-AATCTTTTCAGTAGTATG-C-TTCCTTAA
1 CTTGACTTTCTCATGAAGAT-AGTCAA-CTTTTCAGTAG-ATGTCATT-CTAAA
2124131 CTTGACTTTCTC
1 CTTGACTTTCTC
2124143 GTTTAGAGAA
Statistics
Matches: 101, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
49 2 0.02
50 32 0.32
51 64 0.63
52 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (50 bp):
CTTGACTTTCTCATGAAGATAGTCAACTTTTCAGTAGATGTCATTCTAAA
Found at i:2124859 original size:18 final size:18
Alignment explanation
Indices: 2124825--2124867 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2124815 CCACAAGCAT
2124825 ACCAAAATACAACAAAAA
1 ACCAAAATACAACAAAAA
*
2124843 ACCACAAATACAA-AAAAT
1 ACCA-AAATACAACAAAAA
2124861 ACCAAAA
1 ACCAAAA
2124868 GAAACCGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 8 0.35
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (18 bp):
ACCAAAATACAACAAAAA
Found at i:2125756 original size:2 final size:2
Alignment explanation
Indices: 2125751--2125813 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
2125741 CTTGATTTTT
* *
2125751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2125793 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2125814 TAAAGCCTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2125973 original size:13 final size:13
Alignment explanation
Indices: 2125948--2125980 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2125938 TTTGAATCGG
2125948 AATTTTAAATTTA
1 AATTTTAAATTTA
*
2125961 AA-TTTAAATTTT
1 AATTTTAAATTTA
2125973 AATTTTAA
1 AATTTTAA
2125981 TTTTCGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:2133859 original size:2 final size:2
Alignment explanation
Indices: 2133847--2133904 Score: 107
Period size: 2 Copynumber: 28.5 Consensus size: 2
2133837 AACAGGGTTC
2133847 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2133890 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
2133905 GGATGATTAC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 53 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2138254 original size:23 final size:23
Alignment explanation
Indices: 2138225--2138286 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2138215 ATTTTATATG
*
2138225 GCACTTCTGTGCATTTCTACGCA
1 GCACTTCAGTGCATTTCTACGCA
* * * * **
2138248 GTACTTCGGTACAATTCTACGTG
1 GCACTTCAGTGCATTTCTACGCA
2138271 GCACTTCAGTGCATTT
1 GCACTTCAGTGCATTT
2138287 ATATTAGCTG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (23 bp):
GCACTTCAGTGCATTTCTACGCA
Found at i:2141921 original size:148 final size:151
Alignment explanation
Indices: 2141716--2142098 Score: 342
Period size: 148 Copynumber: 2.6 Consensus size: 151
2141706 TAAATATGAC
* * * * * ** *
2141716 ATTTATTTATTTAAAAATATCAGAAAAAGACATCTAGTTGCT-TTAAGATTG-TTTTTTCTTTAA
1 ATTTAATTATTT-AAAATACCAGAATAAGACATCCAGTT-ATATTAAGACCGCTCTTTTCTTTAA
* *
2141779 TATTAATAAATAAATAAATATTAATAAGAATATAATAA-TTTTCCTAA-AAATAATGAA-ATAAA
64 TATTAA-AAATAAATAAATATTAATAAAAATATAATAATTTTTCCTAACAAAAAAT-AATATAAA
* * *
2141841 TATATACT-TTTATAAGAAGGATATTT
127 TA-AAACTAATTATAAGAAGGATA-AT
* ** * *
2141867 ATTT-ATT-TTTAAAGTACCAGAATAAGATGTCCAGTTATTTTAAGACCGC-CTTTTC-TTAGTA
1 ATTTAATTATTTAAAATACCAGAATAAGACATCCAGTTATATTAAGACCGCTCTTTTCTTTAATA
* * *
2141928 TTTAAAATATAAAT-AA-A-CAATAAAAATGTAATAATTTTTCCTAACAAAAAATAATTTAAATA
66 -TTAAAA-ATAAATAAATATTAATAAAAATATAATAATTTTTCCTAACAAAAAATAATATAAATA
*****
2141990 AAACTAAATTATAATTTTTATAAT
129 AAACT-AATTATAAGAAGGATAAT
* *
2142014 ATTTAATTATTTAAAATACCAGAATAAGACATCCAGTTATATTAAGACTGCTCTTTTCTTTGATA
1 ATTTAATTATTTAAAATACCAGAATAAGACATCCAGTTATATTAAGACCGCTCTTTTCTTTAATA
2142079 TTAAAAATAAATAAATATTA
66 TTAAAAATAAATAAATATTA
2142099 TTTTTTAATG
Statistics
Matches: 183, Mismatches: 33, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
145 14 0.08
146 16 0.09
147 27 0.15
148 54 0.30
149 46 0.25
150 16 0.09
151 9 0.05
152 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (151 bp):
ATTTAATTATTTAAAATACCAGAATAAGACATCCAGTTATATTAAGACCGCTCTTTTCTTTAATA
TTAAAAATAAATAAATATTAATAAAAATATAATAATTTTTCCTAACAAAAAATAATATAAATAAA
ACTAATTATAAGAAGGATAAT
Found at i:2142704 original size:21 final size:23
Alignment explanation
Indices: 2142677--2142729 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
2142667 GGGAGAGTCG
2142677 GTCACTATTCT-GACCACCGTC-
1 GTCACTATTCTCGACCACCGTCA
* *
2142698 GTTACTATT-TCGGCCACCGTCA
1 GTCACTATTCTCGACCACCGTCA
2142720 GTCACTATTC
1 GTCACTATTC
2142730 ACGGTGGCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 17 0.65
22 8 0.31
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (23 bp):
GTCACTATTCTCGACCACCGTCA
Found at i:2143414 original size:3 final size:3
Alignment explanation
Indices: 2143406--2143468 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
2143396 TTATTTATTA
*
2143406 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
**
2143452 TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
2143469 AACGAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:2143786 original size:45 final size:45
Alignment explanation
Indices: 2143722--2144184 Score: 676
Period size: 45 Copynumber: 10.3 Consensus size: 45
2143712 TAAAATCTCA
* * ** *
2143722 TTTGAAAACATCATGCACTGGAGGTCTTATGGATGACTCGGAA-GT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGAC-CCGAAGGT
*
2143767 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
2143812 TTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
*
2143857 TTTGAAAACATCATGCATTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
2143902 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
*
2143947 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* * *
2143992 TTTGAAAACATCATGCATTAAAGAACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
2144037 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
2144082 TTTGAAAACATCATACACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* * * * * *
2144127 TTTGAAAACATAATGTACTGTAGGGCTTACAGATGACCCAAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
*
2144172 TTTGAAAATATCA
1 TTTGAAAACATCA
2144185 AAAAGCTCCC
Statistics
Matches: 379, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
44 4 0.01
45 375 0.99
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
Found at i:2144252 original size:76 final size:74
Alignment explanation
Indices: 2144118--2144260 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 74
2144108 TTACAGATGA
* *
2144118 CCCGAAGGTTTTGAAAACATAATGTACTGTAGGGCTTACAGATGACCCAAAGGCTTTGAAAATAT
1 CCCGAAGGTTTTGAAAACATAATGCACTGTAGGGCTTACAGATGACCCAAAGGCTTTGAAAACAT
2144183 CAAAAAGCT
66 CAAAAAGCT
** * *
2144192 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATAATGCACTGTAGGGCTTACAGATGACCCAAAGGCTTTGAAAAC
2144257 ATCA
64 ATCA
2144261 TGCACTGAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 8 0.13
76 53 0.87
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATAATGCACTGTAGGGCTTACAGATGACCCAAAGGCTTTGAAAACAT
CAAAAAGCT
Found at i:2144258 original size:45 final size:45
Alignment explanation
Indices: 2144192--2144372 Score: 290
Period size: 45 Copynumber: 4.0 Consensus size: 45
2144182 TCAAAAAGCT
* *
2144192 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2144239 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
2144284 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
2144329 CCCGAAGGTTTTGCAAACGTCATGCACTGAAGCGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
2144373 TGGGAAATAG
Statistics
Matches: 127, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 119 0.94
47 8 0.06
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:2144297 original size:121 final size:121
Alignment explanation
Indices: 2144081--2144305 Score: 360
Period size: 121 Copynumber: 1.9 Consensus size: 121
2144071 GACCTGAAGG
* *
2144081 TTTTGAAAACATCATACACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATAATGTACT
1 TTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAATGCACT
* *
2144146 GTAGGGCTTACAGATGACCCAAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCT
66 GAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
* * * *
2144202 TTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAATGCACT
* *
2144267 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
66 GAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCA
2144306 TGCACTGAAG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
121 94 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (121 bp):
TTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAATGCACT
GAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
Found at i:2144325 original size:166 final size:164
Alignment explanation
Indices: 2144028--2144341 Score: 511
Period size: 166 Copynumber: 1.9 Consensus size: 164
2144018 TTACAGATGA
*
2144028 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
2144093 CATACACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATAATGTACTGTAGGGCTTACA
66 CATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAATGCACTGAAGGGCTTACA
2144158 GATGACCCAAAGGCTTTGAAAATATCAAAAAGCT
131 GATGACCCAAAGGCTTTGAAAATATCAAAAAGCT
* *
2144192 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
* * *
2144257 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGTTTA
64 ATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAATGCACTGAAGGGCTTA
* *
2144322 CAGATGACCCGAAGGTTTTG
129 CAGATGACCCAAAGGCTTTG
2144342 CAAACGTCAT
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
164 8 0.06
166 129 0.94
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (164 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAATGCACTGAAGGGCTTACA
GATGACCCAAAGGCTTTGAAAATATCAAAAAGCT
Found at i:2145052 original size:22 final size:22
Alignment explanation
Indices: 2145027--2145105 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
2145017 AATAAGGCTT
*
2145027 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
2145049 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
* * *
2145071 CCATATTTGAAGAGTGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
2145093 TCATCTTTGAAGA
1 TCATCTTTGAAGA
2145106 ATGTAGATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:2146530 original size:75 final size:75
Alignment explanation
Indices: 2146445--2146624 Score: 306
Period size: 75 Copynumber: 2.4 Consensus size: 75
2146435 GTAAAATGAT
* * ** *
2146445 ATGGGGTTTCAACATGCCCCAACATTTGCTAATACATACGTTCAAAATGCGCCAACATTCTTGAT
1 ATGGGCTTTCAGCATGCCCCAGTATTTGCTAATACAGACGTTCAAAATGCGCCAACATTCTTGAT
2146510 TCTGATTGAA
66 TCTGATTGAA
*
2146520 ATGGGCTTTCAGCATGCCCTAGTATTTGCTAATACAGACGTTCAAAATGCGCCAACATTCTTGAT
1 ATGGGCTTTCAGCATGCCCCAGTATTTGCTAATACAGACGTTCAAAATGCGCCAACATTCTTGAT
2146585 TCTGATTGAA
66 TCTGATTGAA
2146595 ATGGGCTTTCAGCATGCCCCAGTATTTGCT
1 ATGGGCTTTCAGCATGCCCCAGTATTTGCT
2146625 GATTTTTTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 98 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (75 bp):
ATGGGCTTTCAGCATGCCCCAGTATTTGCTAATACAGACGTTCAAAATGCGCCAACATTCTTGAT
TCTGATTGAA
Found at i:2149483 original size:32 final size:32
Alignment explanation
Indices: 2149442--2149503 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2149432 GAAGAAATGA
* *
2149442 TTGTTATGCTTATCTGGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTCGTAGAGATACTTCTCG
2149474 TTGTTATGCTCATCTCGTAGAGATACTTCT
1 TTGTTATGCTCATCTCGTAGAGATACTTCT
2149504 TGTGTCCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (32 bp):
TTGTTATGCTCATCTCGTAGAGATACTTCTCG
Found at i:2149973 original size:10 final size:10
Alignment explanation
Indices: 2149958--2150044 Score: 98
Period size: 10 Copynumber: 9.2 Consensus size: 10
2149948 TTTGATTCAA
2149958 TTTTTTCTTC
1 TTTTTTCTTC
2149968 TTTTTTTCTTC
1 -TTTTTTCTTC
2149979 TTTTTTCTTC
1 TTTTTTCTTC
2149989 TTTTTT-TTC
1 TTTTTTCTTC
2149998 -TTTTT-TTC
1 TTTTTTCTTC
2150006 TTTTTTC--C
1 TTTTTTCTTC
*
2150014 TGTTTT-TTC
1 TTTTTTCTTC
2150023 TTTTTTCTT-
1 TTTTTTCTTC
2150032 TTTTTTCCTTC
1 TTTTTT-CTTC
2150043 TT
1 TT
2150045 CAAGTATAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
8 14 0.21
9 20 0.30
10 21 0.31
11 12 0.18
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:2149976 original size:8 final size:8
Alignment explanation
Indices: 2149959--2150036 Score: 81
Period size: 8 Copynumber: 9.9 Consensus size: 8
2149949 TTGATTCAAT
2149959 TTTTTCTTC
1 TTTTT-TTC
2149968 TTTTTTTC
1 TTTTTTTC
*
2149976 TTCTTTT-
1 TTTTTTTC
* *
2149983 TTCTTCT-
1 TTTTTTTC
2149990 TTTTTTTC
1 TTTTTTTC
2149998 TTTTTTTC
1 TTTTTTTC
*
2150006 TTTTTTCC
1 TTTTTTTC
2150014 TGTTTTTTC
1 T-TTTTTTC
2150023 -TTTTTTC
1 TTTTTTTC
2150030 TTTTTTT
1 TTTTTTT
2150037 TCCTTCTTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
7 18 0.30
8 31 0.52
9 11 0.18
ACGTcount: A:0.00, C:0.15, G:0.01, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2150009 original size:27 final size:29
Alignment explanation
Indices: 2149970--2150038 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 29
2149960 TTTTCTTCTT
*
2149970 TTTTTCTTCTTTTTTCTTCT-TTTTTTTC
1 TTTTTCTTCTTTTTTCTCCTGTTTTTTTC
2149998 TTTTT-TTC-TTTTT-TCCTG-TTTTTTC
1 TTTTTCTTCTTTTTTCTCCTGTTTTTTTC
2150023 TTTTTTCTT-TTTTTTC
1 -TTTTTCTTCTTTTTTC
2150039 CTTCTTCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
25 10 0.29
26 10 0.29
27 10 0.29
28 5 0.14
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (29 bp):
TTTTTCTTCTTTTTTCTCCTGTTTTTTTC
Found at i:2152896 original size:26 final size:27
Alignment explanation
Indices: 2152827--2152896 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 27
2152817 CATAAATACA
* * *
2152827 AAAATAAGAATGCAAATTGTGCAATGC
1 AAAATAAAAATGCAAAGTATGCAATGC
* * *
2152854 AAAAGTAAACAT-AAAAGTATG-AATTC
1 AAAA-TAAAAATGCAAAGTATGCAATGC
2152880 AAAATAAAAATGCAAAG
1 AAAATAAAAATGCAAAG
2152897 ATGTAAAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 6 0.18
26 12 0.36
27 10 0.30
28 5 0.15
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (27 bp):
AAAATAAAAATGCAAAGTATGCAATGC
Done.