Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 26
Found at i:2057085 original size:20 final size:20
Alignment explanation
Indices: 2057060--2057104 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2057050 TTATCCGGAA
*
2057060 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCAGTCTGGGGTTT
2057080 AAAAATCCAGTCTGGGGTTT
1 AAAAATCCAGTCTGGGGTTT
2057100 AAAAA
1 AAAAA
2057105 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCAGTCTGGGGTTT
Found at i:2061236 original size:25 final size:24
Alignment explanation
Indices: 2061193--2061244 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
2061183 TTCATCCCTT
*
2061193 AAAATTTTATAAATCTATTATTTTTA
1 AAAATTTTAAAAATCTA-T-TTTTTA
2061219 AAAATTTTAAAAAT-TATTTTTTA
1 AAAATTTTAAAAATCTATTTTTTA
2061242 AAA
1 AAA
2061245 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 1 0.04
25 2 0.08
26 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AAAATTTTAAAAATCTATTTTTTA
Found at i:2063368 original size:20 final size:24
Alignment explanation
Indices: 2063318--2063373 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
2063308 TGCATAGGTA
*
2063318 ATGCATCGATGCACTCGTTAAAGG
1 ATGCATCGATACACTCGTTAAAGG
2063342 ATGCATCGATACACT-G-TAAA-G
1 ATGCATCGATACACTCGTTAAAGG
2063363 -TGCATCGATAC
1 ATGCATCGATAC
2063374 CTACATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 4 0.13
23 1 0.03
24 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
ATGCATCGATACACTCGTTAAAGG
Found at i:2063898 original size:2 final size:2
Alignment explanation
Indices: 2063893--2063917 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2063883 TATATATATA
2063893 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2063918 TTACATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2064297 original size:31 final size:31
Alignment explanation
Indices: 2064259--2064326 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
2064249 AGAGTAATGT
*
2064259 ACAGTTTACCTATGTTCTAAGGAACATATGG
1 ACAGTTTACCTAGGTTCTAAGGAACATATGG
** * *
2064290 ACAGTTTACCTAGGTTCTTCGGGACCTATGG
1 ACAGTTTACCTAGGTTCTAAGGAACATATGG
2064321 ACAGTT
1 ACAGTT
2064327 GCCGAGGTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (31 bp):
ACAGTTTACCTAGGTTCTAAGGAACATATGG
Found at i:2064337 original size:30 final size:31
Alignment explanation
Indices: 2064285--2064351 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
2064275 CTAAGGAACA
*
2064285 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGTTCTTCGGGACC
* *
2064316 TATGGACAG-TTGCCGAGGTTCTTTGGGACC
1 TATGGACAGTTTACCGAGGTTCTTCGGGACC
*
2064346 TCTGGA
1 TATGGA
2064352 TAGGTCATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTCGGGACC
Found at i:2071206 original size:30 final size:31
Alignment explanation
Indices: 2071150--2071213 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
2071140 TGTCTTTCAA
* *
2071150 GACATATGGACAGTTTACCTAGGTTCTTCGG
1 GACATATGCACAGTTTACCGAGGTTCTTCGG
* *
2071181 GACATATGCACA-TTTGCCGAGGTTCTTTGG
1 GACATATGCACAGTTTACCGAGGTTCTTCGG
2071211 GAC
1 GAC
2071214 CTCTGGATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (31 bp):
GACATATGCACAGTTTACCGAGGTTCTTCGG
Found at i:2073381 original size:147 final size:147
Alignment explanation
Indices: 2073114--2073407 Score: 588
Period size: 147 Copynumber: 2.0 Consensus size: 147
2073104 TTCGGAGAGT
2073114 CTCTTGTACCTTCAAACAATAATAATCTATCAGTCCCAAATCTTACTTAATTGTTCAAAACTAGA
1 CTCTTGTACCTTCAAACAATAATAATCTATCAGTCCCAAATCTTACTTAATTGTTCAAAACTAGA
2073179 CTTCTTAAGTATATAAGCATTTTCTGGGTTCGACTATCAATTTGGGGTATTTCGAGTCTGAATTT
66 CTTCTTAAGTATATAAGCATTTTCTGGGTTCGACTATCAATTTGGGGTATTTCGAGTCTGAATTT
2073244 GGCCAAACGGATTGCGG
131 GGCCAAACGGATTGCGG
2073261 CTCTTGTACCTTCAAACAATAATAATCTATCAGTCCCAAATCTTACTTAATTGTTCAAAACTAGA
1 CTCTTGTACCTTCAAACAATAATAATCTATCAGTCCCAAATCTTACTTAATTGTTCAAAACTAGA
2073326 CTTCTTAAGTATATAAGCATTTTCTGGGTTCGACTATCAATTTGGGGTATTTCGAGTCTGAATTT
66 CTTCTTAAGTATATAAGCATTTTCTGGGTTCGACTATCAATTTGGGGTATTTCGAGTCTGAATTT
2073391 GGCCAAACGGATTGCGG
131 GGCCAAACGGATTGCGG
2073408 AATCGGAATC
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 147 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (147 bp):
CTCTTGTACCTTCAAACAATAATAATCTATCAGTCCCAAATCTTACTTAATTGTTCAAAACTAGA
CTTCTTAAGTATATAAGCATTTTCTGGGTTCGACTATCAATTTGGGGTATTTCGAGTCTGAATTT
GGCCAAACGGATTGCGG
Found at i:2073704 original size:29 final size:29
Alignment explanation
Indices: 2073661--2073796 Score: 129
Period size: 29 Copynumber: 4.8 Consensus size: 29
2073651 AACATTTGAA
* *
2073661 AATTTCCAAAATGTCACCTTTTTTAAAAT
1 AATTTCCATAATGTCACCTTTTTCAAAAT
* * *
2073690 AATTTCCATAGTGTCACCTTTTACGAAAT
1 AATTTCCATAATGTCACCTTTTTCAAAAT
* * *
2073719 AATTCCCA-ATATGTTACC-TTTTCCAAAT
1 AATTTCCATA-ATGTCACCTTTTTCAAAAT
2073747 -ATTTCCCATAATGTCACCTTTTTCAAAAT
1 AATTT-CCATAATGTCACCTTTTTCAAAAT
*
2073776 AA-TTCCAAAAATGTCA-CTTTT
1 AATTTCC-ATAATGTCACCTTTT
2073797 ATAGAAATAT
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
27 3 0.03
28 26 0.30
29 57 0.66
30 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (29 bp):
AATTTCCATAATGTCACCTTTTTCAAAAT
Found at i:2073816 original size:29 final size:27
Alignment explanation
Indices: 2073662--2073821 Score: 99
Period size: 29 Copynumber: 5.6 Consensus size: 27
2073652 ACATTTGAAA
* *
2073662 ATTTCCAAAATGTCACCTTTTTTAAAAT
1 ATTTCCCAAATGTCA-CTTTTTCAAAAT
* * *
2073690 AATTT-CCATAGTGTCACCTTTTACGAAAT
1 -ATTTCCCA-AATGTCA-CTTTTTCAAAAT
* * * *
2073719 AATTCCCAATATGTTACCTTTTCCAAAT
1 ATTTCCCAA-ATGTCACTTTTTCAAAAT
2073747 ATTTCCCATAATGTCACCTTTTTCAAAAT
1 ATTTCCCA-AATGTCA-CTTTTTCAAAAT
* *
2073776 AATTCCAAAAATGTCACTTTTAT-AGAAAT
1 ATTTCC-CAAATGTCACTTTT-TCA-AAAT
*
2073805 ATTTCCCTAAATATCAC
1 ATTTCCC-AAATGTCAC
2073822 CTAATAACAA
Statistics
Matches: 102, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
28 33 0.32
29 68 0.67
30 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (27 bp):
ATTTCCCAAATGTCACTTTTTCAAAAT
Found at i:2080267 original size:29 final size:29
Alignment explanation
Indices: 2080204--2080366 Score: 120
Period size: 29 Copynumber: 5.7 Consensus size: 29
2080194 AACATTTGAA
* *
2080204 AATTCCCAAAATGTTACCTTTTTA--AAAT
1 AATTCCCATAATGTCACC-TTTTACGAAAT
*
2080232 AATTCCCATAGTGTCACCTTTTACGAAAT
1 AATTCCCATAATGTCACCTTTTACGAAAT
* * *
2080261 AATTCCCA-ATATGTTACCTTTTTTC-CAAT
1 AATTCCCATA-ATGTCACC-TTTTACGAAAT
* * * *
2080290 ATTTTCCATAATGTCACCTTTTTCAAAAT
1 AATTCCCATAATGTCACCTTTTACGAAAT
* *
2080319 AATTCCCAAAATATCACC-TTTATCGAAAT
1 AATTCCCATAATGTCACCTTTTA-CGAAAT
* * *
2080348 ATTTCCCAAAATATCACCT
1 AATTCCCATAATGTCACCT
2080367 ACCAACAATT
Statistics
Matches: 109, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
27 5 0.05
28 25 0.23
29 73 0.67
30 6 0.06
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
AATTCCCATAATGTCACCTTTTACGAAAT
Found at i:2080319 original size:58 final size:57
Alignment explanation
Indices: 2080204--2080366 Score: 173
Period size: 58 Copynumber: 2.8 Consensus size: 57
2080194 AACATTTGAA
* *
2080204 AATTCCCAAAATGTTACCTTTTTAAAATAATTCCCATAGTGTCACCTTTTACGAAAT
1 AATTCCCAAAATGTTACCTTTTTAAAATAATTCCCATAATGTCACCTTTTACAAAAT
* ** * * *
2080261 AATTCCCAATATGTTACCTTTTTTCCAATATTTTCCATAATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTTACC-TTTTTAAAATAATTCCCATAATGTCACCTTTTACAAAAT
* * ** * * *
2080319 AATTCCCAAAATATCACCTTTATCGAAATATTTCCCAAAATATCACCT
1 AATTCCCAAAATGTTACCTTT-TTAAAATAATTCCCATAATGTCACCT
2080367 ACCAACAATT
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
57 20 0.23
58 67 0.77
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (57 bp):
AATTCCCAAAATGTTACCTTTTTAAAATAATTCCCATAATGTCACCTTTTACAAAAT
Found at i:2080379 original size:29 final size:28
Alignment explanation
Indices: 2080313--2080385 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
2080303 TCACCTTTTT
* *
2080313 CAAAATAATTCCCAAAATATCACCTTTAT
1 CAAAATATTTCCCAAAATATCACC-TTAC
*
2080342 CGAAATATTTCCCAAAATATCACC-TAC
1 CAAAATATTTCCCAAAATATCACCTTAC
*
2080369 CAACAATTATTTACCAA
1 CAA-AA-TATTTCCCAA
2080386 TCTAGCCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.11
28 2 0.05
29 31 0.84
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (28 bp):
CAAAATATTTCCCAAAATATCACCTTAC
Found at i:2081054 original size:190 final size:191
Alignment explanation
Indices: 2080729--2081110 Score: 748
Period size: 190 Copynumber: 2.0 Consensus size: 191
2080719 GTGGTGCTAA
2080729 AAAAACGTCGAGACTTTGACTCAAAATTCACGGCGTTTGGCAGCGTTTCGCTATAATTGGTTTAC
1 AAAAACGTCGAGACTTTGACTCAAAATTCACGGCGTTTGGCAGCGTTTCGC-ATAATTGGTTTAC
2080794 TGGGCTTTGTTCACGAGTCGAAGATGAACACGATGGTGGTTTCAATTTGACGGTCGGAGGTCAGA
65 TGGGCTTTGTTCACGAGTCGAAGATGAACACGATGGTGGTTTCAATTTGACGGTCGGAGGTCAGA
2080859 CGGTATCAGAATCGGGCTTCAAAGCAGAGGTGCGGGAGGAGAATTTTATGAGTTGGTTTCTG
130 CGGTATCAGAATCGGGCTTCAAAGCAGAGGTGCGGGAGGAGAATTTTATGAGTTGGTTTCTG
2080921 AAAAACGTCGAGACTTTGACTCAAAATTCACGGCGTTTGGCAGCGTTTCGC-TAATTGGTTTACT
1 AAAAACGTCGAGACTTTGACTCAAAATTCACGGCGTTTGGCAGCGTTTCGCATAATTGGTTTACT
2080985 GGGCTTTGTTCACGAGTCGAAGATGAACACGATGGTGGTTTCAATTTGACGGTCGGAGGTCAGAC
66 GGGCTTTGTTCACGAGTCGAAGATGAACACGATGGTGGTTTCAATTTGACGGTCGGAGGTCAGAC
2081050 GGTATCAGAATCGGGCTTCAAAGCAGAGGTGCGGGAGGAGAATTTTATGAGTTGGTTTCTG
131 GGTATCAGAATCGGGCTTCAAAGCAGAGGTGCGGGAGGAGAATTTTATGAGTTGGTTTCTG
2081111 TGTTTTCACG
Statistics
Matches: 190, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
190 139 0.73
192 51 0.27
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (191 bp):
AAAAACGTCGAGACTTTGACTCAAAATTCACGGCGTTTGGCAGCGTTTCGCATAATTGGTTTACT
GGGCTTTGTTCACGAGTCGAAGATGAACACGATGGTGGTTTCAATTTGACGGTCGGAGGTCAGAC
GGTATCAGAATCGGGCTTCAAAGCAGAGGTGCGGGAGGAGAATTTTATGAGTTGGTTTCTG
Found at i:2083907 original size:59 final size:60
Alignment explanation
Indices: 2083788--2083909 Score: 140
Period size: 59 Copynumber: 2.0 Consensus size: 60
2083778 GCATCATTTG
** * * * *
2083788 TCCTTAAACTATGATCCTCATTTCAAATTGAGCCTTAAAGTTTTGAACATTCTAATTTCA
1 TCCTTAAACTATGATCCTCATTTCAAATTGAGCCCCAAACTTTTGAACATACCAAATTCA
* * *
2083848 TCCTTAAACTATGCT-TTCATTTTAAATT-AGTCCCCAAACTTTTGAACATACCAAATTCA
1 TCCTTAAACTATGATCCTCATTTCAAATTGAG-CCCCAAACTTTTGAACATACCAAATTCA
2083907 TCC
1 TCC
2083910 CCAAGCTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 2 0.04
59 36 0.69
60 14 0.27
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (60 bp):
TCCTTAAACTATGATCCTCATTTCAAATTGAGCCCCAAACTTTTGAACATACCAAATTCA
Found at i:2097748 original size:124 final size:124
Alignment explanation
Indices: 2097528--2097777 Score: 491
Period size: 124 Copynumber: 2.0 Consensus size: 124
2097518 ATCTATACGA
2097528 GCATCCAAGATCACTTACTTATGTTATACTCCATACTAGATGAGATCAAGGAATATTGCGATATT
1 GCATCCAAGATCACTTACTTATGTTATACTCCATACTAGATGAGATCAAGGAATATTGCGATATT
2097593 GATCGTATTGTAATTCATTATTGTCATATTGGTTATTGATGTTGAAAGTACATGGTTAG
66 GATCGTATTGTAATTCATTATTGTCATATTGGTTATTGATGTTGAAAGTACATGGTTAG
2097652 GCATCCAAGATCACTTACTTATGTTATACTCCATACTAGATGAGATCAAGGAATATTGCGATATT
1 GCATCCAAGATCACTTACTTATGTTATACTCCATACTAGATGAGATCAAGGAATATTGCGATATT
*
2097717 GATCGTATTGTAATTCATTATTTTCATATTGGTTATTGATGTTGAAAGTACATGGTTAG
66 GATCGTATTGTAATTCATTATTGTCATATTGGTTATTGATGTTGAAAGTACATGGTTAG
2097776 GC
1 GC
2097778 CTCTAGTTGT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 125 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (124 bp):
GCATCCAAGATCACTTACTTATGTTATACTCCATACTAGATGAGATCAAGGAATATTGCGATATT
GATCGTATTGTAATTCATTATTGTCATATTGGTTATTGATGTTGAAAGTACATGGTTAG
Found at i:2101917 original size:168 final size:168
Alignment explanation
Indices: 2101639--2101982 Score: 643
Period size: 168 Copynumber: 2.0 Consensus size: 168
2101629 CGAACCTCGT
* *
2101639 TAAAATTCTTATGTTCTTTTGTTTTCTTTTTTTGATTCTTCAACAGAACTCAAGTCGACATTATA
1 TAAAATTCTTATGTTCTTTCGTTTTCTTTTTTCGATTCTTCAACAGAACTCAAGTCGACATTATA
2101704 ACTCATATTCAAATATGAAATCACAAAGAGAAGTTGATTAATTACAGGAAAGATTTACGCATTCA
66 ACTCATATTCAAATATGAAATCACAAAGAGAAGTTGATTAATTACAGGAAAGATTTACGCATTCA
2101769 AACTGAATGGAAAAGATCCAAAAAGTGGGAACTACATC
131 AACTGAATGGAAAAGATCCAAAAAGTGGGAACTACATC
*
2101807 TAAAATTCTTGTGTTCTTTCGTTTTCTTTTTTCGATTCTTCAACAGAACTCAAGTCGACATTATA
1 TAAAATTCTTATGTTCTTTCGTTTTCTTTTTTCGATTCTTCAACAGAACTCAAGTCGACATTATA
* *
2101872 ACTCATATTCAAATATGAAATCATAAAGAGAAGTTGATTAATTACATGAAAGATTTACGCATTCA
66 ACTCATATTCAAATATGAAATCACAAAGAGAAGTTGATTAATTACAGGAAAGATTTACGCATTCA
2101937 AACTGAATGGAAAAGATCCAAAAAGTGGGAACTACATC
131 AACTGAATGGAAAAGATCCAAAAAGTGGGAACTACATC
2101975 TAAAATTC
1 TAAAATTC
2101983 ATGCATGTAA
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 171 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (168 bp):
TAAAATTCTTATGTTCTTTCGTTTTCTTTTTTCGATTCTTCAACAGAACTCAAGTCGACATTATA
ACTCATATTCAAATATGAAATCACAAAGAGAAGTTGATTAATTACAGGAAAGATTTACGCATTCA
AACTGAATGGAAAAGATCCAAAAAGTGGGAACTACATC
Found at i:2103368 original size:18 final size:18
Alignment explanation
Indices: 2103345--2103381 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2103335 AACCGGTCTG
2103345 ACCCGACCCAACCCGTCA
1 ACCCGACCCAACCCGTCA
2103363 ACCCGACCCAACCCGTCA
1 ACCCGACCCAACCCGTCA
2103381 A
1 A
2103382 TTCGATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.54, G:0.11, T:0.05
Consensus pattern (18 bp):
ACCCGACCCAACCCGTCA
Found at i:2106572 original size:11 final size:11
Alignment explanation
Indices: 2106556--2106586 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2106546 TCGTTTGGGA
2106556 CTTTTTCTTTT
1 CTTTTTCTTTT
2106567 CTTTTTCTTTT
1 CTTTTTCTTTT
*
2106578 TTTTTTCTT
1 CTTTTTCTT
2106587 ATAATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:2107911 original size:12 final size:12
Alignment explanation
Indices: 2107886--2107935 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
2107876 TAAATTAAAA
2107886 AATTAAAAA-AT
1 AATTAAAAATAT
*
2107897 AATTAAAAATTT
1 AATTAAAAATAT
** *
2107909 AATT-GTAATTT
1 AATTAAAAATAT
2107920 AATTAAAAATAT
1 AATTAAAAATAT
2107932 AATT
1 AATT
2107936 TTTATAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 18 0.58
12 13 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
AATTAAAAATAT
Found at i:2107912 original size:23 final size:23
Alignment explanation
Indices: 2107886--2107935 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
2107876 TAAATTAAAA
*
2107886 AATTAAAAAATAATTAAAAATTT
1 AATTAAAAAATAATTAAAAATAT
** **
2107909 AATTGTAATTTAATTAAAAATAT
1 AATTAAAAAATAATTAAAAATAT
2107932 AATT
1 AATT
2107936 TTTATAAAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
AATTAAAAAATAATTAAAAATAT
Found at i:2111216 original size:3 final size:3
Alignment explanation
Indices: 2111208--2111238 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2111198 CTCGATGTGG
*
2111208 ATT ATT ATT ATT ATT CTT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2111239 CATGATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2117343 original size:14 final size:14
Alignment explanation
Indices: 2117324--2117373 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2117314 AGTCAACGGA
*
2117324 TTGACTCAGACTAG
1 TTGACTCAGACAAG
*
2117338 TTGACTCGGACAAG
1 TTGACTCAGACAAG
*
2117352 TTGACTCAGATCGAG
1 TTGACTCAGA-CAAG
2117367 TTGACTC
1 TTGACTC
2117374 GGCCGGGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 21 0.68
15 10 0.32
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (14 bp):
TTGACTCAGACAAG
Found at i:2119096 original size:10 final size:10
Alignment explanation
Indices: 2119081--2119110 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2119071 ATTTAGAAGG
2119081 TAATATATTA
1 TAATATATTA
2119091 TAATATATTA
1 TAATATATTA
*
2119101 TAATAAATTA
1 TAATATATTA
2119111 ATATTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TAATATATTA
Found at i:2119320 original size:22 final size:22
Alignment explanation
Indices: 2119268--2119320 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
2119258 ATTATAGGTA
* *
2119268 ATAATTTATTTTTTTATTAGTTT
1 ATAAATTA-TTTTTTAATAGTTT
*
2119291 ATATATTATTTTTTAATA-TTT
1 ATAAATTATTTTTTAATAGTTT
2119312 ATTAAATTA
1 A-TAAATTA
2119321 GGAGAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 4 0.16
22 15 0.60
23 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATAAATTATTTTTTAATAGTTT
Found at i:2128252 original size:23 final size:24
Alignment explanation
Indices: 2128197--2128259 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
2128187 TAAATCAAAT
*
2128197 ATCATAACAAAATTCAGGTCAAGA
1 ATCATAACAAAATTCAGATCAAGA
* *
2128221 ATCAAAACAAAATTCATAT-AAG-
1 ATCATAACAAAATTCAGATCAAGA
*
2128243 ATGCATAACAGAATTCA
1 AT-CATAACAAAATTCA
2128260 AATCGGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 2 0.06
23 15 0.45
24 16 0.48
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.22
Consensus pattern (24 bp):
ATCATAACAAAATTCAGATCAAGA
Found at i:2130419 original size:270 final size:270
Alignment explanation
Indices: 2129938--2130480 Score: 1023
Period size: 270 Copynumber: 2.0 Consensus size: 270
2129928 CGTTATAAAC
* *
2129938 TTTTTATCCACTTCCAGGGTCAATTCTTGTCTTTTTACAATATAAGGGTATTTTTTTAATTTTAC
1 TTTTTATCCACTTCCAGGGTCAATTCTTGTCTTTTTACAAGATAAGGGTATTTTTGTAATTTTAC
*
2130003 CTAATCGAAGTATTCTTATAATTTATCATCTAAGCACCTTTAATGAGATAAATTATAATTTACAT
66 CTAATCGAAATATTCTTATAATTTATCATCTAAGCACCTTTAATGAGATAAATTATAATTTACAT
2130068 ATTTAGGATTGATTCTTTTATCGCTCAATCACAGAACTTGTAATTCAATAGTCTTAACTAATTTA
131 ATTTAGGATTGATTCTTTTATCGCTCAATCACAGAACTTGTAATTCAATAGTCTTAACTAATTTA
*
2130133 TCACTTAAACTGTATTCGGTTCGAATCCATCTATAATCAAACATGCATAATAGACCAATCATATA
196 TCACTTAAACTGTATTCGGTTCGAATCCATCTATAATCAAACATGCATAAAAGACCAATCATATA
2130198 CATTCATGCA
261 CATTCATGCA
2130208 TTTTTATCCACTTCCAGGGTCAATTCTTGTCTTTTTACAAGATAAGGGTATTTTTGTAATTTTAC
1 TTTTTATCCACTTCCAGGGTCAATTCTTGTCTTTTTACAAGATAAGGGTATTTTTGTAATTTTAC
*
2130273 CTAATCGAAATTTTCTTATAATTTATCATCTAAGCACCTTTAATGAGATAAATTATAATTTACAT
66 CTAATCGAAATATTCTTATAATTTATCATCTAAGCACCTTTAATGAGATAAATTATAATTTACAT
2130338 ATTTAGGATTGATTCTTTTATCGCTCAATCACAGAACTTGTAATTCAATAGTCTTAACTAATTTA
131 ATTTAGGATTGATTCTTTTATCGCTCAATCACAGAACTTGTAATTCAATAGTCTTAACTAATTTA
* *
2130403 TTACTTAAATTGTATTCGGTTCGAATCCATCTATAATCAAACATGCATAAAAGACCAATCATATA
196 TCACTTAAACTGTATTCGGTTCGAATCCATCTATAATCAAACATGCATAAAAGACCAATCATATA
2130468 CATTCATGCA
261 CATTCATGCA
2130478 TTT
1 TTT
2130481 ATCTATTATC
Statistics
Matches: 266, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
270 266 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (270 bp):
TTTTTATCCACTTCCAGGGTCAATTCTTGTCTTTTTACAAGATAAGGGTATTTTTGTAATTTTAC
CTAATCGAAATATTCTTATAATTTATCATCTAAGCACCTTTAATGAGATAAATTATAATTTACAT
ATTTAGGATTGATTCTTTTATCGCTCAATCACAGAACTTGTAATTCAATAGTCTTAACTAATTTA
TCACTTAAACTGTATTCGGTTCGAATCCATCTATAATCAAACATGCATAAAAGACCAATCATATA
CATTCATGCA
Found at i:2133429 original size:22 final size:22
Alignment explanation
Indices: 2133404--2133446 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2133394 TGGTAAGTGA
*
2133404 CTCACGCGCCGCCCTTGCACGC
1 CTCACGCGCCGCCCCTGCACGC
2133426 CTCACGCGCCGCCCCTGCACG
1 CTCACGCGCCGCCCCTGCACG
2133447 TGGAGGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.56, G:0.23, T:0.12
Consensus pattern (22 bp):
CTCACGCGCCGCCCCTGCACGC
Found at i:2133626 original size:29 final size:30
Alignment explanation
Indices: 2133563--2133638 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
2133553 GACTCGACTC
* * *
2133563 GGGTGCTATTTTCATAAATATTTTTAAAAA
1 GGGTGTTAGTTTCGTAAATATTTTTAAAAA
* *
2133593 TGGTGTTCGTTTCGTAAATATTTTT-AAAA
1 GGGTGTTAGTTTCGTAAATATTTTTAAAAA
2133622 GGGTGTTAGTTTCGTAA
1 GGGTGTTAGTTTCGTAA
2133639 TTAATATCTG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (30 bp):
GGGTGTTAGTTTCGTAAATATTTTTAAAAA
Found at i:2141056 original size:28 final size:30
Alignment explanation
Indices: 2140992--2141064 Score: 114
Period size: 28 Copynumber: 2.5 Consensus size: 30
2140982 CACGACCCAA
*
2140992 GTGTTATTTTCGTAAATATTTTTAAAAAGG
1 GTGTTAGTTTCGTAAATATTTTTAAAAAGG
2141022 GTGTTAGTTTCGTAAATA-TTTT-AAAAGG
1 GTGTTAGTTTCGTAAATATTTTTAAAAAGG
*
2141050 GTGTTAGTTTTGTAA
1 GTGTTAGTTTCGTAA
2141065 TTAATTTCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 20 0.49
29 4 0.10
30 17 0.41
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (30 bp):
GTGTTAGTTTCGTAAATATTTTTAAAAAGG
Found at i:2143038 original size:24 final size:24
Alignment explanation
Indices: 2142985--2143039 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
2142975 CTATGTCAGG
* * *
2142985 AATCAGAACATAATTCATATCAGA
1 AATCAGAACATAATTCAAATAAAA
**
2143009 TGTCAGAACATAATTCAAATAAAA
1 AATCAGAACATAATTCAAATAAAA
2143033 AATCAGA
1 AATCAGA
2143040 TAAAATATTC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (24 bp):
AATCAGAACATAATTCAAATAAAA
Found at i:2151818 original size:213 final size:216
Alignment explanation
Indices: 2151434--2151863 Score: 830
Period size: 213 Copynumber: 2.0 Consensus size: 216
2151424 CAATTTTGAT
2151434 AAGAAAAGTAAATAGAAGAGCTCCAATTAATCTAGTTAGAATTCCCAGAACAATGCTTAGAATTT
1 AAGAAAAGTAAATA-AAGAGCTCCAATTAATCTAGTTAGAATTCCCAGAACAATGCTTAGAATTT
2151499 CCCTTTTGAGTCCAATCTTAAAGTCTTGAGACTGAGAAGACAGCCGTCTAATGAATTGATCTTTG
65 CCCTTTTGAGTCCAATCTTAAAGTCTTGAGACTGAGAAGACAGCCGTCTAATGAATTGATCTTTG
2151564 CACTCTATGGTTGTTGTTTGGTGAAAGAATAGAACCAGAAGAAGCAGCAAACCCAGAGCGATTCT
130 CACTCTATGGTTGTTGTTTGGTGAAAGAATAGAACCAGAAGAAGCAGCAAACCCAGAGCGATTCT
2151629 GCAACTTCCCATTTTTGCCATG
195 GCAACTTCCCATTTTTGCCATG
2151651 AAGAAAAGTAAAT-AAGAGCTCCAATTAATCTAGTTAGAATTCCCAGAACAATGCTTAGAATTTC
1 AAGAAAAGTAAATAAAGAGCTCCAATTAATCTAGTTAGAATTCCCAGAACAATGCTTAGAATTTC
2151715 CCTTTTGAGTCCAATCTTAAAGTC-T-AGACTGAGAAGACAGCCGTCTAATGAATTGATCTTTGC
66 CCTTTTGAGTCCAATCTTAAAGTCTTGAGACTGAGAAGACAGCCGTCTAATGAATTGATCTTTGC
2151778 ACTCTATGGTTGTTGTTTGGTGAAAGAATAGAACCAGAAGAAGCAGCAAACCCAGAGCGATTCTG
131 ACTCTATGGTTGTTGTTTGGTGAAAGAATAGAACCAGAAGAAGCAGCAAACCCAGAGCGATTCTG
2151843 CAACTTCCCATTTTTGCCATG
196 CAACTTCCCATTTTTGCCATG
2151864 GAATCATAAA
Statistics
Matches: 213, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
213 124 0.58
214 1 0.00
215 75 0.35
217 13 0.06
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (216 bp):
AAGAAAAGTAAATAAAGAGCTCCAATTAATCTAGTTAGAATTCCCAGAACAATGCTTAGAATTTC
CCTTTTGAGTCCAATCTTAAAGTCTTGAGACTGAGAAGACAGCCGTCTAATGAATTGATCTTTGC
ACTCTATGGTTGTTGTTTGGTGAAAGAATAGAACCAGAAGAAGCAGCAAACCCAGAGCGATTCTG
CAACTTCCCATTTTTGCCATG
Found at i:2159813 original size:30 final size:31
Alignment explanation
Indices: 2159779--2159840 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
2159769 ACCTATCTAG
* *
2159779 AGGTCATAAAGAACCTCGGT-AACTATCCAT
1 AGGTCACAAAGAACCTAGGTAAACTATCCAT
* * *
2159809 AGGTCCCGAAGAACCTAGGTAAACTGTCCAT
1 AGGTCACAAAGAACCTAGGTAAACTATCCAT
2159840 A
1 A
2159841 TGTCCCGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (31 bp):
AGGTCACAAAGAACCTAGGTAAACTATCCAT
Found at i:2159846 original size:31 final size:31
Alignment explanation
Indices: 2159787--2159881 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
2159777 AGAGGTCATA
* * *
2159787 AAGAACCTCGGT-AACTATCCATAGGTCCCG
1 AAGAACCTAGGTAAACTGTCCATATGTCCCG
2159817 AAGAACCTAGGTAAACTGTCCATATGTCCCG
1 AAGAACCTAGGTAAACTGTCCATATGTCCCG
* * * *
2159848 AAGGACATAGGTAATCTTGTCCATATGTCTCG
1 AAGAACCTAGGTAAAC-TGTCCATATGTCCCG
2159880 AA
1 AA
2159882 AGACATAGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.20
31 29 0.52
32 16 0.29
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (31 bp):
AAGAACCTAGGTAAACTGTCCATATGTCCCG
Found at i:2159874 original size:32 final size:31
Alignment explanation
Indices: 2159799--2159893 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 31
2159789 GAACCTCGGT
* * * *
2159799 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGGACATAGGTA
2159830 AACTGTCCATATGTCCCGAAGGACATAGGTA
1 AACTGTCCATATGTCCCGAAGGACATAGGTA
* * *
2159861 ATCTTGTCCATATGTCTCGAAAGACATAGGTA
1 AAC-TGTCCATATGTCCCGAAGGACATAGGTA
2159893 A
1 A
2159894 CCCTCGACTC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
31 29 0.52
32 27 0.48
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGGACATAGGTA
Found at i:2160211 original size:2 final size:2
Alignment explanation
Indices: 2160206--2160259 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2160196 ACACACATAC
2160206 AT AT AT 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
2160248 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2160260 CGTTTATACC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2161387 original size:2 final size:2
Alignment explanation
Indices: 2161380--2161408 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2161370 ACGTGGAACC
2161380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2161409 CTCTCTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2164961 original size:30 final size:31
Alignment explanation
Indices: 2164922--2164988 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
2164912 GAAAGACCTA
* * * *
2164922 TCCAGAGGTCATAAAGAACCTCGG-CAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
2164952 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
2164983 TCCATA
1 TCCATA
2164989 TGTCCCGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:2165022 original size:32 final size:30
Alignment explanation
Indices: 2164947--2165041 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 30
2164937 GAACCTCGGC
* *
2164947 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAG-ACATAGGTA
2164978 AACTGTCCATATGTCCCGAATGACATAGGTA
1 AACTGTCCATATGTCCCGAA-GACATAGGTA
* **
2165009 ATCATGTCCATATGTCTCAAAAGACATAGGTA
1 AAC-TGTCCATATGTC-CCGAAGACATAGGTA
2165041 A
1 A
2165042 CCCTCAACTC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
31 29 0.52
32 24 0.43
33 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (30 bp):
AACTGTCCATATGTCCCGAAGACATAGGTA
Found at i:2165359 original size:2 final size:2
Alignment explanation
Indices: 2165354--2165387 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2165344 ACACACACAC
2165354 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
2165388 CGTTTATCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2165454 original size:18 final size:19
Alignment explanation
Indices: 2165431--2165469 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2165421 GTATATATAT
*
2165431 TCATACAA-AACATATCAC
1 TCATACAATAACATATAAC
2165449 TCATACAATAACATATAAC
1 TCATACAATAACATATAAC
2165468 TC
1 TC
2165470 TTTCATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (19 bp):
TCATACAATAACATATAAC
Found at i:2166485 original size:16 final size:16
Alignment explanation
Indices: 2166464--2166496 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2166454 TAATAAATAA
2166464 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2166480 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2166496 A
1 A
2166497 ATTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2166589 original size:16 final size:16
Alignment explanation
Indices: 2166568--2166625 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
2166558 TAAATAAACG
2166568 AACATAAACGAACACA
1 AACATAAACGAACACA
* *
2166584 AACATAAACAAACACG
1 AACATAAACGAACACA
*
2166600 AACATAAATGAACACA
1 AACATAAACGAACACA
2166616 AACATAAACG
1 AACATAAACG
2166626 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.62, C:0.22, G:0.07, T:0.09
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:2168197 original size:24 final size:24
Alignment explanation
Indices: 2168160--2168222 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
2168150 ATATTGGGTT
** *
2168160 AAACATAAATGAACGCACATAAAC
1 AAACATAACCGAACGAACATAAAC
*
2168184 GAACATAACCGAACGAACATAAAC
1 AAACATAACCGAACGAACATAAAC
*
2168208 AAATATAACCGAACG
1 AAACATAACCGAACG
2168223 TTCACGAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.56, C:0.22, G:0.11, T:0.11
Consensus pattern (24 bp):
AAACATAACCGAACGAACATAAAC
Found at i:2169449 original size:2 final size:2
Alignment explanation
Indices: 2169442--2169467 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2169432 AATTTAAATG
2169442 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
2169468 ACCTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2172766 original size:3 final size:3
Alignment explanation
Indices: 2172758--2172835 Score: 95
Period size: 3 Copynumber: 25.7 Consensus size: 3
2172748 TCATTTCATT
** *
2172758 TTA TTA TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
2172806 TTA TAAA TT- TTA TATA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TT
2172836 TAAATAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.03
3 57 0.89
4 5 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2174574 original size:22 final size:22
Alignment explanation
Indices: 2174524--2174575 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
2174514 TATCTTAGTC
2174524 ATATAAATATATATATTGTTTA
1 ATATAAATATATATATTGTTTA
* *
2174546 ATAATAATATTTATTTATT-TTTA
1 AT-ATAA-ATATATATATTGTTTA
2174569 ATATAAA
1 ATATAAA
2174576 AAAGGGGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 6 0.23
23 10 0.38
24 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATAAATATATATATTGTTTA
Found at i:2176687 original size:20 final size:19
Alignment explanation
Indices: 2176641--2176691 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2176631 ATAACCAACA
* * *
2176641 AATTCGCAACGCGATCTCG
1 AATTCGCAACACGAACTCC
2176660 AATTCGCAACACGAACTCC
1 AATTCGCAACACGAACTCC
2176679 AATTTCGCAACAC
1 AA-TTCGCAACAC
2176692 AGTTTCCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (19 bp):
AATTCGCAACACGAACTCC
Found at i:2176699 original size:20 final size:20
Alignment explanation
Indices: 2176639--2176774 Score: 125
Period size: 20 Copynumber: 6.8 Consensus size: 20
2176629 AAATAACCAA
* *
2176639 CAAATTCGCAACGCGATCT-
1 CAAATTCGCAACACGATTTC
* **
2176658 CGAATTCGCAACACGAACTC
1 CAAATTCGCAACACGATTTC
*
2176678 CAATTTCGCAACAC-AGTTTC
1 CAAATTCGCAACACGA-TTTC
*
2176698 CAAATTCGCAACGCGATTTC
1 CAAATTCGCAACACGATTTC
*
2176718 CAAATTCACAACACTGAATTT-
1 CAAATTCGCAACAC-G-ATTTC
*
2176739 CAAATTCGCAACTCGATTTC
1 CAAATTCGCAACACGATTTC
**
2176759 TGAATTCGCAACACGA
1 CAAATTCGCAACACGA
2176775 ATTTTAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
19 21 0.22
20 56 0.59
21 14 0.15
22 4 0.04
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACACGATTTC
Found at i:2176789 original size:20 final size:19
Alignment explanation
Indices: 2176763--2176810 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
2176753 GATTTCTGAA
2176763 TTCGCAACACGAATTTTAATT
1 TTCGCAACACG-ATTTT-ATT
2176784 TT-GCAACA-GATTTTATT
1 TTCGCAACACGATTTTATT
2176801 TTCGCAACAC
1 TTCGCAACAC
2176811 AAATGTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 1 0.04
20 6 0.24
21 2 0.08
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
TTCGCAACACGATTTTATT
Found at i:2176966 original size:14 final size:16
Alignment explanation
Indices: 2176947--2176983 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2176937 TCCTCATCTC
2176947 TAATTTT-TTT-TACA
1 TAATTTTATTTCTACA
*
2176961 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
2176977 TAATTTT
1 TAATTTT
2176984 CAATGATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:2177598 original size:12 final size:12
Alignment explanation
Indices: 2177577--2177610 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2177567 ACCACATTTC
*
2177577 CAATACCAAACA
1 CAATATCAAACA
2177589 CAATATCAAACA
1 CAATATCAAACA
*
2177601 CAATCTCAAA
1 CAATATCAAA
2177611 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:2180073 original size:18 final size:18
Alignment explanation
Indices: 2180050--2180085 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2180040 AAGCAAAAGG
*
2180050 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
2180068 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2180086 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2181861 original size:21 final size:21
Alignment explanation
Indices: 2181836--2181952 Score: 130
Period size: 21 Copynumber: 5.6 Consensus size: 21
2181826 GTGAATCGGG
* * *
2181836 CTCTTGAACGGTGTGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
* *
2181857 CTCTTAAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
2181878 CTCTTGAAC-AGTGGGAGGGGC
1 CTCTTGAACGA-TGAGAGGGGC
*
2181899 CTCTTGAACGATGAGATGGGC
1 CTCTTGAACGATGAGAGGGGC
*
2181920 CTCTTGAATGAT-AGAAGGGGC
1 CTCTTGAACGATGAG-AGGGGC
2181941 CTCTTGAACGAT
1 CTCTTGAACGAT
2181953 TACAGGTGAA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.04
21 76 0.95
22 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:2182119 original size:4 final size:4
Alignment explanation
Indices: 2182098--2182139 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
2182088 GGGCTACTAA
* * *
2182098 AAAT AAAT TAAT ACAT AAAT AAGT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
2182140 TACCGAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:2182386 original size:21 final size:21
Alignment explanation
Indices: 2182362--2182411 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2182352 ATAATTGTCG
* *
2182362 TCACGTAAAGTACCGACCTTA
1 TCACGTAAAGCACCGACCTCA
** *
2182383 TCACACAAAGCACTGACCTCA
1 TCACGTAAAGCACCGACCTCA
2182404 TCACGTAA
1 TCACGTAA
2182412 CTCCCCTAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:2183952 original size:19 final size:19
Alignment explanation
Indices: 2183901--2183954 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
2183891 AGTAGTTTCT
*
2183901 GAAACTTAAATTCGCAACGC
1 GAAAC-TAAAATCGCAACGC
*
2183921 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
2183941 GAAACTAAAATCGC
1 GAAACTAAAATCGC
2183955 GTTGCGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:2184344 original size:22 final size:22
Alignment explanation
Indices: 2184318--2184379 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
2184308 GATGGAGATA
*
2184318 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATAGG
2184340 GACGGATTTCGCC-GAAGATAGG
1 GACGGATTTCGCCAG-AGATAGG
**
2184362 GATAGATTTCGCCAGAGA
1 GACGGATTTCGCCAGAGA
2184380 GAGTGAGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATAGG
Found at i:2184390 original size:22 final size:22
Alignment explanation
Indices: 2184322--2184390 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
2184312 GAGATAGACG
2184322 GATTTCGCCAGAGATG-GGGACG-
1 GATTTCGCCAGAGA-GAGGGA-GA
* *
2184344 GATTTCGCC-GAAGATAGGGATA
1 GATTTCGCCAG-AGAGAGGGAGA
*
2184366 GATTTCGCCAGAGAGAGTGAGA
1 GATTTCGCCAGAGAGAGGGAGA
2184388 GAT
1 GAT
2184391 GGAGATGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.20
Consensus pattern (22 bp):
GATTTCGCCAGAGAGAGGGAGA
Found at i:2184501 original size:19 final size:20
Alignment explanation
Indices: 2184479--2184516 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2184469 AATATTGTGT
2184479 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
2184498 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
2184517 CGCGCTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:2185035 original size:31 final size:31
Alignment explanation
Indices: 2185000--2185060 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2184990 GCATAATATC
**
2185000 TAGTCACTTTCTTTTTTATTTAATTAAGATT
1 TAGTCACTTTAGTTTTTATTTAATTAAGATT
2185031 TAGTCACTTTAGTTTTTATTTAATTAAGAT
1 TAGTCACTTTAGTTTTTATTTAATTAAGAT
2185061 GTGATCACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (31 bp):
TAGTCACTTTAGTTTTTATTTAATTAAGATT
Found at i:2185069 original size:31 final size:31
Alignment explanation
Indices: 2185001--2185069 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
2184991 CATAATATCT
** *
2185001 AGTCACTTTCTTTTTTATTTAATTAAGATTT
1 AGTCACTTTAGTTTTTATTTAATTAAGATTG
2185032 AGTCACTTTAGTTTTTATTTAATTAAGATGTG
1 AGTCACTTTAGTTTTTATTTAATTAAGAT-TG
2185064 A-TCACT
1 AGTCACT
2185070 GAGGGTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (31 bp):
AGTCACTTTAGTTTTTATTTAATTAAGATTG
Found at i:2189072 original size:13 final size:14
Alignment explanation
Indices: 2189045--2189073 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2189035 CAACCGGTTG
2189045 GTAAAATAGAAACT
1 GTAAAATAGAAACT
2189059 GTAAAATA-AAACT
1 GTAAAATAGAAACT
2189072 GT
1 GT
2189074 TAGTACTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (14 bp):
GTAAAATAGAAACT
Found at i:2189329 original size:52 final size:53
Alignment explanation
Indices: 2189264--2189370 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 53
2189254 CACAAGATGG
* *
2189264 GGCACATAGAAATAGAAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGAAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
* *
2189318 GGCACAT-AAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
1 GGCACATAAAATAGAAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
2189370 G
1 G
2189371 AATATTATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 42 0.86
54 7 0.14
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (53 bp):
GGCACATAAAATAGAAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
Found at i:2193887 original size:52 final size:52
Alignment explanation
Indices: 2193822--2193927 Score: 151
Period size: 51 Copynumber: 2.0 Consensus size: 52
2193812 AACAAGATAG
* * *
2193822 GGCACATAGAAATAGGAAACTAGCCTAGAGTTTTGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAG-TTAGGAATTACAACTAATCACAA
*
2193876 GGCACAT-AAATAGGAGACTAGCCTAGAGTTAGGAATTACAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGAATTACAACTAATCACAA
2193927 G
1 G
2193928 AATATTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
51 21 0.44
52 20 0.42
54 7 0.15
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.22
Consensus pattern (52 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGAATTACAACTAATCACAA
Found at i:2195126 original size:33 final size:31
Alignment explanation
Indices: 2195088--2195173 Score: 111
Period size: 33 Copynumber: 2.7 Consensus size: 31
2195078 GAAATTTCAT
2195088 TTTGGTTGGTGGCCAACTTATTGAAAAATTAATC
1 TTTGGTTGGTGGCCAACTTATTG-AAAA--AATC
* *
2195122 -TTGGTTGGTGGCCAACTCATTGGAAAAATC
1 TTTGGTTGGTGGCCAACTTATTGAAAAAATC
*
2195152 TTTGGTAGGTGGCCAACTTATT
1 TTTGGTTGGTGGCCAACTTATT
2195174 TTTCATGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 4 0.09
31 19 0.40
32 3 0.06
33 21 0.45
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (31 bp):
TTTGGTTGGTGGCCAACTTATTGAAAAAATC
Found at i:2205360 original size:4 final size:4
Alignment explanation
Indices: 2205353--2205386 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
2205343 TCTCTCTCTA
2205353 TATC TATC TATC TATC TATC TATC TATC TATC TA
1 TATC TATC TATC TATC TATC TATC TATC TATC TA
2205387 ATTCTCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:2205821 original size:14 final size:16
Alignment explanation
Indices: 2205786--2205822 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
2205776 GTTTTAGTTT
2205786 TTTTTAAGTATTTTAC
1 TTTTTAAGTATTTTAC
2205802 TTTTTAA-TATTTTA-
1 TTTTTAAGTATTTTAC
2205816 TTTTTAA
1 TTTTTAA
2205823 AATAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTTAAGTATTTTAC
Found at i:2215932 original size:42 final size:42
Alignment explanation
Indices: 2215873--2215956 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
2215863 TACCCACTTG
2215873 TACCCAATTATATTCTTTCCCTTCGGAAGACTAGTGTAACAC
1 TACCCAATTATATTCTTTCCCTTCGGAAGACTAGTGTAACAC
*
2215915 TACCCAATTGTATTCTTTCCCTTCGGAAGACTAGTGTAACAC
1 TACCCAATTATATTCTTTCCCTTCGGAAGACTAGTGTAACAC
2215957 CCCCAACTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (42 bp):
TACCCAATTATATTCTTTCCCTTCGGAAGACTAGTGTAACAC
Found at i:2216680 original size:23 final size:24
Alignment explanation
Indices: 2216654--2216714 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
2216644 CTCATATAAA
*
2216654 TGCACCGAAGTGCCA-CATAGAAT
1 TGCACCGTAGTGCCAGCATAGAAT
*
2216677 TGCACCGTAGTG-CAGCGTAGAAT
1 TGCACCGTAGTGCCAGCATAGAAT
*
2216700 TACACCGTAGTGCCA
1 TGCACCGTAGTGCCA
2216715 TATAATAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.06
23 29 0.88
24 2 0.06
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (24 bp):
TGCACCGTAGTGCCAGCATAGAAT
Found at i:2216901 original size:103 final size:103
Alignment explanation
Indices: 2216732--2216947 Score: 423
Period size: 103 Copynumber: 2.1 Consensus size: 103
2216722 ATGTCCATAG
2216732 GGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGA
1 GGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGA
2216797 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
*
2216835 GGACCACATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGA
1 GGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGA
2216900 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
2216938 GGACCACATA
1 GGACCACATA
2216948 GACCCTCGAC
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
GGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGA
CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
Found at i:2229213 original size:28 final size:28
Alignment explanation
Indices: 2229167--2229239 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
2229157 TCGGGACATA
* *
2229167 GTGGTCGTTCGGGATATATGTGTTATAT
1 GTGGTCTTTCGGGACATATGTGTTATAT
*
2229195 GTGGTCTTTCGGAACATATGTGTTATAT
1 GTGGTCTTTCGGGACATATGTGTTATAT
2229223 GTGGTCTTTCGGGACAT
1 GTGGTCTTTCGGGACAT
2229240 CTACGTGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.18, C:0.11, G:0.30, T:0.41
Consensus pattern (28 bp):
GTGGTCTTTCGGGACATATGTGTTATAT
Found at i:2231788 original size:2 final size:2
Alignment explanation
Indices: 2231781--2231816 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2231771 CATAACTCAT
2231781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2231817 ATTGTTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2231998 original size:16 final size:16
Alignment explanation
Indices: 2231958--2231998 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2231948 TAATCGTTTG
2231958 ATTTATTAAAATATTA
1 ATTTATTAAAATATTA
2231974 ATGTT-TTAAAATATTA
1 AT-TTATTAAAATATTA
2231990 ATTTATTAA
1 ATTTATTAA
2231999 TCATTATCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTATTAAAATATTA
Found at i:2234004 original size:37 final size:37
Alignment explanation
Indices: 2233954--2234028 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
2233944 TCAAAACGCC
2233954 AATGAACTGAACGATTTTTGCGAAGAGAGATATAGCA
1 AATGAACTGAACGATTTTTGCGAAGAGAGATATAGCA
*
2233991 AATGAACTGAACGATTTTTGCGACGAGAGATATAGCA
1 AATGAACTGAACGATTTTTGCGAAGAGAGATATAGCA
2234028 A
1 A
2234029 GATTCTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (37 bp):
AATGAACTGAACGATTTTTGCGAAGAGAGATATAGCA
Found at i:2238287 original size:13 final size:13
Alignment explanation
Indices: 2238266--2238297 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2238256 TGAATGAAGA
*
2238266 CAACATGCGGTAT
1 CAACCTGCGGTAT
2238279 CAACCTGCGGTAT
1 CAACCTGCGGTAT
2238292 CAACCT
1 CAACCT
2238298 AGCCATTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (13 bp):
CAACCTGCGGTAT
Found at i:2241877 original size:23 final size:22
Alignment explanation
Indices: 2241851--2241903 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2241841 AATCGTATAA
2241851 TTACTAATTTTGACTTATTCAAG
1 TTACT-ATTTTGACTTATTCAAG
* *
2241874 TTACTA-GTTGAGTTATTCAAG
1 TTACTATTTTGACTTATTCAAG
2241895 TT-CTATTTT
1 TTACTATTTT
2241904 ATAATTTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 1 0.04
23 5 0.19
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (22 bp):
TTACTATTTTGACTTATTCAAG
Found at i:2242299 original size:69 final size:69
Alignment explanation
Indices: 2242154--2242356 Score: 335
Period size: 69 Copynumber: 3.0 Consensus size: 69
2242144 CTCGTGAAAT
*
2242154 ACATGTTTATGATATGTACAACATTCATTATTTC-TTTTTTTAATAAAATTCATATAACTTTTTT
1 ACATGTTTATGATATGTACTACATTCATTATTTCTTTTTTTTAATAAAATTCATATAACTTTTTT
2242218 AAGC
66 AAGC
2242222 ACATGTTTATGATATGTACTACATTCATTATTTCTTTTTTTTAATAAAATTCATATAACTTTTTT
1 ACATGTTTATGATATGTACTACATTCATTATTTCTTTTTTTTAATAAAATTCATATAACTTTTTT
2242287 AAGC
66 AAGC
*
2242291 ACATGTTTATGATATGTACTACATTCATTCA--T-TTTTTTTAAATAAAATTCATATAA-TTTAT
1 ACATGTTTATGATATGTACTACATTCATT-ATTTCTTTTTTTTAATAAAATTCATATAACTTT-T
2242352 TTAAG
64 TTAAG
2242357 TGCTTGGCCT
Statistics
Matches: 130, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
66 3 0.02
67 29 0.22
68 34 0.26
69 63 0.48
70 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (69 bp):
ACATGTTTATGATATGTACTACATTCATTATTTCTTTTTTTTAATAAAATTCATATAACTTTTTT
AAGC
Found at i:2252882 original size:17 final size:17
Alignment explanation
Indices: 2252860--2252904 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
2252850 GCTATTGATC
2252860 AACAACAAGAAACAACA
1 AACAACAAGAAACAACA
2252877 AACAACAAGAAACAACA
1 AACAACAAGAAACAACA
* *
2252894 ATCAATAAGAA
1 AACAACAAGAA
2252905 TCAAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.69, C:0.20, G:0.07, T:0.04
Consensus pattern (17 bp):
AACAACAAGAAACAACA
Found at i:2254630 original size:21 final size:21
Alignment explanation
Indices: 2254605--2254644 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2254595 AAGACTTTAT
2254605 TTTCAAAA-TACAAAAATGATA
1 TTTCAAAATTA-AAAAATGATA
2254626 TTTCAAAATTAAAAAATGA
1 TTTCAAAATTAAAAAATGA
2254645 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATTAAAAAATGATA
Found at i:2256729 original size:18 final size:18
Alignment explanation
Indices: 2256706--2256751 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
2256696 AGGCATTTGA
2256706 TCCTCTGGCT-GTGCTTGT
1 TCCTCT-GCTCGTGCTTGT
2256724 TCCTCTGCTCGTGCTTGT
1 TCCTCTGCTCGTGCTTGT
2256742 TCCTCGTGCT
1 TCCTC-TGCT
2256752 GTTCTGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.00, C:0.33, G:0.24, T:0.43
Consensus pattern (18 bp):
TCCTCTGCTCGTGCTTGT
Found at i:2256761 original size:18 final size:19
Alignment explanation
Indices: 2256716--2256766 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
2256706 TCCTCTGGCT
*
2256716 GTGCTTGTTCCTC-TGCTC
1 GTGCTGGTTCCTCGTGCTC
*
2256734 GTGCTTGTTCCTCGTGCT-
1 GTGCTGGTTCCTCGTGCTC
* *
2256752 GTTCTGGTTCATCGT
1 GTGCTGGTTCCTCGT
2256767 CAGAGTCGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.02, C:0.27, G:0.25, T:0.45
Consensus pattern (19 bp):
GTGCTGGTTCCTCGTGCTC
Found at i:2258393 original size:22 final size:22
Alignment explanation
Indices: 2258325--2258451 Score: 184
Period size: 22 Copynumber: 5.8 Consensus size: 22
2258315 ACAGAACCCT
*
2258325 AGGGGGTATCGATTCCCCTAC-
1 AGGGGGTATCGATTCCCCTTCA
* *
2258346 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGTATCGATTCCCCTTC-A
* *
2258369 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGTATCGATTCCCCTTCA
*
2258391 AGGGGGTATCAATTCCCCTTCA
1 AGGGGGTATCGATTCCCCTTCA
2258413 AGGGGGTATCGATTCCCCTTCA
1 AGGGGGTATCGATTCCCCTTCA
2258435 AGGGGGTATCGATTCCC
1 AGGGGGTATCGATTCCC
2258452 TCTGCACTGA
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
21 18 0.19
22 58 0.60
23 21 0.22
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (22 bp):
AGGGGGTATCGATTCCCCTTCA
Found at i:2262307 original size:22 final size:21
Alignment explanation
Indices: 2262265--2262304 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2262255 GAGTTTGTTT
*
2262265 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2262286 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2262305 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2268890 original size:65 final size:64
Alignment explanation
Indices: 2268813--2268961 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 64
2268803 TACACTAGGG
* *** ** *
2268813 TGTGCATTGGTGCACAAATTTGCTTCGATGTTTCAA-AAATAGCTGGGGTGCATCGATGCATGAC
1 TGTGCATCGGTGCACAAATTCAATTCGATGTTTCAATAAA-AGCCAGAGTGCATCGATGCATG-C
2268877 T
64 T
* * * *
2268878 TGTGCATCGGTGCACAAAATCAATTCGATGTTTTAATAAAATCCAGAGTGCATCGATGCATGGT
1 TGTGCATCGGTGCACAAATTCAATTCGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATGCT
*
2268942 TGTGCATCGGTGCATAAATT
1 TGTGCATCGGTGCACAAATT
2268962 GTATTTGAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
64 19 0.27
65 48 0.69
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (64 bp):
TGTGCATCGGTGCACAAATTCAATTCGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATGCT
Found at i:2269377 original size:23 final size:23
Alignment explanation
Indices: 2269347--2269396 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2269337 TTGAAATTAC
2269347 CCCCTTACTATAATATATCTTCT
1 CCCCTTACTATAATATATCTTCT
2269370 CCCCTTACTATAATATATCTTCT
1 CCCCTTACTATAATATATCTTCT
2269393 CCCC
1 CCCC
2269397 CTTTTTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (23 bp):
CCCCTTACTATAATATATCTTCT
Found at i:2271598 original size:27 final size:27
Alignment explanation
Indices: 2271560--2271613 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2271550 GGCGGCTAGA
2271560 GTATCGATGCATTATGCACAAAATTGT
1 GTATCGATGCATTATGCACAAAATTGT
2271587 GTATCGATGCATTATGCACAAAATTGT
1 GTATCGATGCATTATGCACAAAATTGT
2271614 CAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
GTATCGATGCATTATGCACAAAATTGT
Found at i:2275456 original size:20 final size:21
Alignment explanation
Indices: 2275415--2275455 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2275405 AAGATTATTT
2275415 TCATTTTTCAATTTTGAAAAA
1 TCATTTTTCAATTTTGAAAAA
2275436 TCATTTTT-ATATTTTGAAAA
1 TCATTTTTCA-ATTTTGAAAA
2275456 TAAAGTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAAAA
Found at i:2277467 original size:64 final size:64
Alignment explanation
Indices: 2277372--2277513 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 64
2277362 TATACTAGGG
* *** * *
2277372 TGTGCATCGGTGCACAAATTTGCTCCGATGTTTCAA-AAATAGCC-GGGTGCATCAATGCATGAC
1 TGTGCATCGGTGCACAAAATCAATCCAATGTTTCAATAAA-AGCCAGAGTGCATCAATGCATG-C
2277435 T
64 T
* * * *
2277436 TGTGCATCGGTGCACAAAATCAATTCAATGTTTTAATAAAATCCAGAGTGCATCAATGCATGGT
1 TGTGCATCGGTGCACAAAATCAATCCAATGTTTCAATAAAAGCCAGAGTGCATCAATGCATGCT
*
2277500 TGTGCATCGATGCA
1 TGTGCATCGGTGCA
2277514 TAAATTGTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
64 46 0.71
65 19 0.29
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (64 bp):
TGTGCATCGGTGCACAAAATCAATCCAATGTTTCAATAAAAGCCAGAGTGCATCAATGCATGCT
Found at i:2283455 original size:20 final size:20
Alignment explanation
Indices: 2283430--2283476 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2283420 GGAGGACTTA
2283430 GTGCATCAATATACTAGGGT
1 GTGCATCAATATACTAGGGT
**
2283450 GTGCATCGGTATACTAGGGT
1 GTGCATCAATATACTAGGGT
*
2283470 GTACATC
1 GTGCATC
2283477 GGTGCACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (20 bp):
GTGCATCAATATACTAGGGT
Found at i:2283477 original size:20 final size:20
Alignment explanation
Indices: 2283439--2283479 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2283429 AGTGCATCAA
*
2283439 TATACTAGGGTGTGCATCGG
1 TATACTAGGGTGTACATCGG
2283459 TATACTAGGGTGTACATCGG
1 TATACTAGGGTGTACATCGG
2283479 T
1 T
2283480 GCACAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.32
Consensus pattern (20 bp):
TATACTAGGGTGTACATCGG
Found at i:2283561 original size:65 final size:64
Alignment explanation
Indices: 2283473--2283611 Score: 167
Period size: 65 Copynumber: 2.2 Consensus size: 64
2283463 CTAGGGTGTA
* ***
2283473 CATCGGTGCACAAATTTGCTTCGATG-TTTAA-AAAATAGCC-GAGGTGCATCGATGCATGACTT
1 CATCGGTGCACAAAATCAATTCGATGTTTTAATAAAAT--CCAGA-GTGCATCGATGCATG-CTT
2283535 GTG
62 GTG
*
2283538 CATCGGTGCACAAAATCAATTCGATGTTTTAATAAAATCCAGAGTGCATCGATGCATGGTTGTG
1 CATCGGTGCACAAAATCAATTCGATGTTTTAATAAAATCCAGAGTGCATCGATGCATGCTTGTG
*
2283602 CATCGATGCA
1 CATCGGTGCA
2283612 TAGTTGTGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
64 14 0.22
65 39 0.60
66 7 0.11
67 5 0.08
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (64 bp):
CATCGGTGCACAAAATCAATTCGATGTTTTAATAAAATCCAGAGTGCATCGATGCATGCTTGTG
Found at i:2283604 original size:18 final size:18
Alignment explanation
Indices: 2283581--2283631 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
2283571 AAAATCCAGA
*
2283581 GTGCATCGATGCATGGTT
1 GTGCATCGATGCATAGTT
2283599 GTGCATCGATGCATAGTT
1 GTGCATCGATGCATAGTT
2283617 GTGCATCGATGCATA
1 GTGCATCGATGCATA
2283632 AATTGTATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (18 bp):
GTGCATCGATGCATAGTT
Found at i:2288314 original size:21 final size:21
Alignment explanation
Indices: 2288290--2288347 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
2288280 CAGTAGTGAA
* *
2288290 AGCAGAGAGAGAAGCAGCGAT
1 AGCACAGAGAGAAGCAGCGAC
* * * *
2288311 AGCATAGAGAGAAGTATCGGC
1 AGCACAGAGAGAAGCAGCGAC
2288332 AGCACAGAGAGAAGCA
1 AGCACAGAGAGAAGCA
2288348 TCATATCAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.34, T:0.07
Consensus pattern (21 bp):
AGCACAGAGAGAAGCAGCGAC
Found at i:2288980 original size:43 final size:43
Alignment explanation
Indices: 2288798--2288977 Score: 240
Period size: 43 Copynumber: 4.2 Consensus size: 43
2288788 GTGTTTTTAG
2288798 GAAAAACGCCGCTAAATCTCA-ACACCTATTGCGGCGTTTGTGA
1 GAAAAACGCCGCTAAATCTCACA-ACCTATTGCGGCGTTTGTGA
* * *
2288841 GAAAAACGCCACTAAATGTCACAACCTATTGCGGCATTTGTGA
1 GAAAAACGCCGCTAAATCTCACAACCTATTGCGGCGTTTGTGA
* * *
2288884 GAAAAACGCCACTAAATGTCACAACCTATTGCGTCGTTTGTGA
1 GAAAAACGCCGCTAAATCTCACAACCTATTGCGGCGTTTGTGA
* *
2288927 GAAAAACGTCGCTAAACCTC-CACACCTATTGCGGCGTTTGTTGA
1 GAAAAACGCCGCTAAATCTCACA-ACCTATTGCGGCGTTTG-TGA
2288971 -AAAAACG
1 GAAAAACG
2288978 TCGTTATATA
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
42 2 0.02
43 118 0.95
44 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (43 bp):
GAAAAACGCCGCTAAATCTCACAACCTATTGCGGCGTTTGTGA
Found at i:2301125 original size:30 final size:30
Alignment explanation
Indices: 2301090--2301149 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
2301080 ATACATATAT
*
2301090 TATCGATAATTTTACATACAAAGACAAATA
1 TATCGACAATTTTACATACAAAGACAAATA
2301120 TATCGACAATTTTACATACAAAGACAAATA
1 TATCGACAATTTTACATACAAAGACAAATA
2301150 CAGTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (30 bp):
TATCGACAATTTTACATACAAAGACAAATA
Found at i:2306545 original size:29 final size:29
Alignment explanation
Indices: 2306511--2306596 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
2306501 GTCGAGTAAT
*
2306511 CATTTTATAATTTTTAATAATC-AATGAA
1 CATTTTATAATTTTTAATAATCAAAAGAA
* *
2306539 CTATTTTATAACTTTTAATAATCAAAAGAT
1 C-ATTTTATAATTTTTAATAATCAAAAGAA
*
2306569 CATTTTATAATTTTTAATAATTAAAAGA
1 CATTTTATAATTTTTAATAATCAAAAGA
2306597 CTAAAAACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
28 1 0.02
29 45 0.88
30 5 0.10
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (29 bp):
CATTTTATAATTTTTAATAATCAAAAGAA
Found at i:2307996 original size:2 final size:2
Alignment explanation
Indices: 2307991--2308015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2307981 TGTTAGTGTG
2307991 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2308016 CAAATGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2308254 original size:12 final size:12
Alignment explanation
Indices: 2308237--2308269 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
2308227 ATCTCTTTTA
2308237 TTCGTTTTCATC
1 TTCGTTTTCATC
2308249 TTCGTTTTCATC
1 TTCGTTTTCATC
2308261 TTCGTTTTC
1 TTCGTTTTC
2308270 GTCCTCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.09, T:0.61
Consensus pattern (12 bp):
TTCGTTTTCATC
Found at i:2312336 original size:35 final size:34
Alignment explanation
Indices: 2312251--2312337 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
2312241 ATTTGATATT
*
2312251 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
2312285 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
2312323 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
2312338 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:2312589 original size:21 final size:21
Alignment explanation
Indices: 2312546--2312591 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2312536 TTCTGACTCC
* **
2312546 TCGTTGTCATCATCATCGTCA
1 TCGTTGTCATCACCATCACCA
2312567 TCGTTGTCATCACCATCACCA
1 TCGTTGTCATCACCATCACCA
2312588 TCGT
1 TCGT
2312592 CATTGTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.35
Consensus pattern (21 bp):
TCGTTGTCATCACCATCACCA
Found at i:2313017 original size:18 final size:18
Alignment explanation
Indices: 2312966--2313019 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
2312956 CGATGGTAGC
* *
2312966 ATCATATATGGCTGCAGC
1 ATCATATATGGCTGCGGT
*
2312984 ATCATATATGGTTGCGGT
1 ATCATATATGGCTGCGGT
2313002 ATCATATATGGCTGCGGT
1 ATCATATATGGCTGCGGT
2313020 GGCTGCTGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (18 bp):
ATCATATATGGCTGCGGT
Found at i:2314656 original size:111 final size:111
Alignment explanation
Indices: 2314519--2314738 Score: 404
Period size: 111 Copynumber: 2.0 Consensus size: 111
2314509 ATTACAAAAA
* * *
2314519 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
*
2314584 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
2314630 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
2314695 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGAT
2314739 GTATGATTTC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:2315103 original size:60 final size:61
Alignment explanation
Indices: 2315027--2315142 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
2315017 GCTATTCAGG
* * *
2315027 TATAGCGCGGATCA-GGGGCGCGCTATACCCACGTGACGCCAGATCACCGTATAGCGCGCC
1 TATAGCGCGGAGCAGGGGGCGCGCTATACCCACGTGACGCCAAATCACCATATAGCGCGCC
* * * *
2315087 TATAGCGCGGGGCAGGGGGCGTGCTATACCCACGTGGCGCCAAATCAGCATATAGC
1 TATAGCGCGGAGCAGGGGGCGCGCTATACCCACGTGACGCCAAATCACCATATAGC
2315143 ACGGTGCAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 12 0.25
61 36 0.75
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (61 bp):
TATAGCGCGGAGCAGGGGGCGCGCTATACCCACGTGACGCCAAATCACCATATAGCGCGCC
Found at i:2316099 original size:16 final size:17
Alignment explanation
Indices: 2316078--2316115 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2316068 TAATTACTCT
2316078 TAAATT-AGAAAAAACC
1 TAAATTCAGAAAAAACC
* *
2316094 TAAATTCATAAAAATCC
1 TAAATTCAGAAAAAACC
2316111 TAAAT
1 TAAAT
2316116 CCTAACCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAATTCAGAAAAAACC
Found at i:2318966 original size:20 final size:20
Alignment explanation
Indices: 2318943--2319053 Score: 154
Period size: 20 Copynumber: 5.5 Consensus size: 20
2318933 ACCCAGTTTA
2318943 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
2318963 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
*
2318983 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACACAGAAGT
*
2319003 CAAATTCGCAACGC-GATAGT
1 CAAATTCGCAACACAGA-AGT
**
2319023 CAAATTCGCAAC-GTGAAAGT
1 CAAATTCGCAACACAG-AAGT
2319043 CAAATTCGCAA
1 CAAATTCGCAA
2319054 AGCGCGTTTA
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
19 1 0.01
20 82 0.98
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (20 bp):
CAAATTCGCAACACAGAAGT
Found at i:2319244 original size:22 final size:22
Alignment explanation
Indices: 2319218--2319263 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2319208 GCGACATCTA
* *
2319218 TCCCCATCTCTGACGGAATCCG
1 TCCCCATCTCCGACGAAATCCG
*
2319240 TCCCCATCTCCGGCGAAATCCG
1 TCCCCATCTCCGACGAAATCCG
2319262 TC
1 TC
2319264 TATCTCCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.43, G:0.17, T:0.22
Consensus pattern (22 bp):
TCCCCATCTCCGACGAAATCCG
Found at i:2320917 original size:3 final size:3
Alignment explanation
Indices: 2320909--2320967 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
2320899 TTTTTACCCA
* *
2320909 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2320957 TAT TAT TAT TA
1 TAT TAT TAT TA
2320968 AATATATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2322395 original size:14 final size:14
Alignment explanation
Indices: 2322376--2322406 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2322366 AAATATATAA
2322376 TAAATAAATTATTT
1 TAAATAAATTATTT
2322390 TAAATAAATTATTT
1 TAAATAAATTATTT
2322404 TAA
1 TAA
2322407 TATTTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATAAATTATTT
Found at i:2326142 original size:15 final size:15
Alignment explanation
Indices: 2326122--2326153 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2326112 ATCAATACCT
2326122 TTTTGCATACATACA
1 TTTTGCATACATACA
*
2326137 TTTTGCATACATTCA
1 TTTTGCATACATACA
2326152 TT
1 TT
2326154 CATTTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:2326528 original size:153 final size:155
Alignment explanation
Indices: 2326329--2326638 Score: 606
Period size: 153 Copynumber: 2.0 Consensus size: 155
2326319 TGGAGGATAA
2326329 AATACAGCGTATTGAGGAATAGCATCATAAAGAACAAGAAGAAATGAGAATGAAGTTGGAAAAAA
1 AATACAGCGTATTGAGGAATAGCATCATAAAGAACAAGAAGAAATGAGAATGAAGTTGGAAAAAA
2326394 TTGAAGCCAGTATTGCAAATTCACAAGACAGAATGATGCAGAAAATAGAGGACATGTTTAAAAGG
66 TTGAAGCCAGTATTGCAAATTCACAAGACAGAATGATGCAGAAAATAGAGGACATGTTTAAAAGG
2326459 CAGGCTATCATTGG-AAAATGCCTG
131 CAGGCTATCATTGGAAAAATGCCTG
2326483 AATACAGCGTATTGA-GAATAGCATCATAAAGAACAAGAAGAAATGAGAATGAAGTTGGAAAAAA
1 AATACAGCGTATTGAGGAATAGCATCATAAAGAACAAGAAGAAATGAGAATGAAGTTGGAAAAAA
2326547 TTGAAGCCAGTATTGCAAATTCACAAGACAGAATGATGCAGAAAATAGAGGACATGTTTAAAAGG
66 TTGAAGCCAGTATTGCAAATTCACAAGACAGAATGATGCAGAAAATAGAGGACATGTTTAAAAGG
2326612 CAGGCTATCATTGGAAAAATGCCTG
131 CAGGCTATCATTGGAAAAATGCCTG
2326637 AA
1 AA
2326639 AACCCTGTAT
Statistics
Matches: 155, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
153 128 0.83
154 27 0.17
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (155 bp):
AATACAGCGTATTGAGGAATAGCATCATAAAGAACAAGAAGAAATGAGAATGAAGTTGGAAAAAA
TTGAAGCCAGTATTGCAAATTCACAAGACAGAATGATGCAGAAAATAGAGGACATGTTTAAAAGG
CAGGCTATCATTGGAAAAATGCCTG
Found at i:2334792 original size:83 final size:83
Alignment explanation
Indices: 2334653--2335041 Score: 699
Period size: 83 Copynumber: 4.7 Consensus size: 83
2334643 AATTAAATGA
*
2334653 AAGATGAATTGGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
2334718 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* *
2334736 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACGGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
2334801 A-CAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
2334818 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
2334883 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* * *
2334901 AAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
2334966 ACCAATCATTGAATTTAG
66 ACCAATCATTGAATTTAG
* *
2334984 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGCTATTTGATCTGGTT
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
2335042 TGGTAAGAAC
Statistics
Matches: 294, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
82 80 0.27
83 214 0.73
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (83 bp):
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
ACCAATCATTGAATTTAG
Found at i:2334926 original size:165 final size:166
Alignment explanation
Indices: 2334653--2335041 Score: 717
Period size: 165 Copynumber: 2.3 Consensus size: 166
2334643 AATTAAATGA
*
2334653 AAGATGAATTGGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
*
2334718 ACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTAT
*
2334783 CTGATCTGGTTGGACGGAA-CAATCATTGAATTTAG
131 CTGATCTGGTTGGACAGAACCAATCATTGAATTTAG
2334818 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
2334883 ACCAATCATTGAATTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTAT
*
2334948 CTGATCTGGTTGGACATAACCAATCATTGAATTTAG
131 CTGATCTGGTTGGACAGAACCAATCATTGAATTTAG
* *
2334984 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGCTATTTGATCTGGTT
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
2335042 TGGTAAGAAC
Statistics
Matches: 217, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
165 145 0.67
166 72 0.33
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (166 bp):
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGA
ACCAATCATTGAATTTAGAAGATGAATTTGCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTGGACAGAACCAATCATTGAATTTAG
Found at i:2335940 original size:113 final size:113
Alignment explanation
Indices: 2335732--2336123 Score: 642
Period size: 113 Copynumber: 3.5 Consensus size: 113
2335722 CAAAGATTCA
* * * *
2335732 AATCTATCATTTGATGGAT-TTACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCAT-CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * **
2335796 CAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTCTG
65 AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * *
2335845 AATTCATCACTTGATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
2335910 AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
2335958 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
2336023 AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
2336071 AATCCATCATTTGATGGATCATCTTTTCCAGAGGAAGTTCATAATGAGAAGAA
1 AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
2336124 TTTATTCAAC
Statistics
Matches: 261, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
113 260 1.00
114 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:2336150 original size:73 final size:72
Alignment explanation
Indices: 2336030--2336195 Score: 296
Period size: 73 Copynumber: 2.3 Consensus size: 72
2336020 AGAAAGAAGA
*
2336030 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCT
1 AGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCT
2336095 TTTCCAG
66 TTTCCAG
*
2336102 AGGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTACCTGAATCCATCATTTGATGGATTATC
1 A-GAAGTTCATAATGAGAAGAATTTATTCAACCTTTTACCTGAATCCATCATTTGATGGATCATC
2336167 TTTTCCAG
65 TTTTCCAG
*
2336175 AAAAGTTCATAATGAGAAGAA
1 AGAAGTTCATAATGAGAAGAA
2336196 CTCATCTAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
72 20 0.22
73 70 0.78
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (72 bp):
AGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTACCTGAATCCATCATTTGATGGATCATCT
TTTCCAG
Found at i:2336578 original size:3 final size:3
Alignment explanation
Indices: 2336570--2336649 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
2336560 TTTTTACCCA
2336570 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2336618 TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2336650 AATATATATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2338098 original size:14 final size:14
Alignment explanation
Indices: 2338079--2338109 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2338069 AAATATATAA
2338079 TAAATAAATTATTT
1 TAAATAAATTATTT
2338093 TAAATAAATTATTT
1 TAAATAAATTATTT
2338107 TAA
1 TAA
2338110 TATTTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATAAATTATTT
Found at i:2340681 original size:10 final size:9
Alignment explanation
Indices: 2340652--2340690 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
2340642 TTTCTTGTCA
2340652 TTATTTTAT
1 TTATTTTAT
2340661 TTA-TTTAT
1 TTATTTTAT
2340669 TTATTTCTAT
1 TTATTT-TAT
2340679 TTATTTTTAT
1 TTA-TTTTAT
2340689 TT
1 TT
2340691 TACTAACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 5 0.19
10 11 0.41
11 3 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTATTTTAT
Found at i:2345255 original size:18 final size:18
Alignment explanation
Indices: 2345232--2345267 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2345222 TCAACATCAA
*
2345232 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
2345250 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
2345268 GAATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:2346073 original size:37 final size:37
Alignment explanation
Indices: 2346003--2346074 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
2345993 TGGAACTAAG
* * *
2346003 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
* *
2346040 TTTTGTCTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAA
2346075 CATATATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
Done.