Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 115 of 167
Found at i:38416950 original size:18 final size:18
Alignment explanation
Indices: 38416927--38416964 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38416917 TTCGGTTCGA
38416927 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
38416945 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
38416963 AA
1 AA
38416965 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:38416957 original size:13 final size:13
Alignment explanation
Indices: 38416941--38416965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38416931 CAAGTACCCA
38416941 ACCCAACCCAATT
1 ACCCAACCCAATT
38416954 ACCCAACCCAAT
1 ACCCAACCCAAT
38416966 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:38417003 original size:5 final size:6
Alignment explanation
Indices: 38416990--38417030 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
38416980 ATAATTTAAT
38416990 AAATAA AAATAA AAATTTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
38417031 AACATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:38417015 original size:20 final size:21
Alignment explanation
Indices: 38416982--38417025 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
38416972 AATTACAAAT
38416982 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
38417003 AATTTAA-AAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
38417023 AAT
1 AAT
38417026 AAAAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:38417031 original size:20 final size:20
Alignment explanation
Indices: 38416990--38417032 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
38416980 ATAATTTAAT
**
38416990 AAATAAAAATAAAAATTTAA
1 AAATAAAAATAAAAATAAAA
38417010 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
38417030 AAA
1 AAA
38417033 CATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:38417099 original size:18 final size:18
Alignment explanation
Indices: 38417078--38417118 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38417068 GTAATTTAGG
*
38417078 TAATTCTGTTAATTCGAT
1 TAATTCAGTTAATTCGAT
* *
38417096 TAATACAGTTAATTCGGT
1 TAATTCAGTTAATTCGAT
38417114 TAATT
1 TAATT
38417119 TTATACTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (18 bp):
TAATTCAGTTAATTCGAT
Found at i:38417099 original size:27 final size:27
Alignment explanation
Indices: 38417051--38417118 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
38417041 TTTATACAAA
* * **
38417051 TAATTCGGTTAATTTGGGTAATTTAGG
1 TAATTCGGTTAATTCGAGTAATACAGG
* * *
38417078 TAATTCTGTTAATTCGATTAATACAGT
1 TAATTCGGTTAATTCGAGTAATACAGG
38417105 TAATTCGGTTAATT
1 TAATTCGGTTAATT
38417119 TTATACTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCGAGTAATACAGG
Found at i:38417415 original size:46 final size:47
Alignment explanation
Indices: 38417327--38417443 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 47
38417317 ATTCGTGCGC
* * *
38417327 CAGTGTAAGA-TATGTCTGGGACA-TGCATCGGCTACAAGATGT-GT
1 CAGTGTAAGACCATGTCTGGGACATTGCATCAGCTACAAGATGTAGA
* * *
38417371 CAGTGTAAGACCATGTGTGGGACATTGCATCAGC-ACGGATATGTGAGA
1 CAGTGTAAGACCATGTCTGGGACATTGCATCAGCTAC-AAGATGT-AGA
*
38417419 GAGTGTAAGACCATGTCTGGGACAT
1 CAGTGTAAGACCATGTCTGGGACAT
38417444 GGCGTTGGCC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.17
45 13 0.22
46 13 0.22
48 24 0.40
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATTGCATCAGCTACAAGATGTAGA
Found at i:38420306 original size:34 final size:34
Alignment explanation
Indices: 38420268--38420335 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38420258 AACGGGGAGC
38420268 TCTTCCGAGCCATATAACAAGAAGCTCATGCAAG
1 TCTTCCGAGCCATATAACAAGAAGCTCATGCAAG
38420302 TCTTCCGAGCCATATAACAAGAAGCTCATGCAAG
1 TCTTCCGAGCCATATAACAAGAAGCTCATGCAAG
38420336 CTATATAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (34 bp):
TCTTCCGAGCCATATAACAAGAAGCTCATGCAAG
Found at i:38420447 original size:25 final size:25
Alignment explanation
Indices: 38420308--38420472 Score: 131
Period size: 25 Copynumber: 6.6 Consensus size: 25
38420298 CAAGTCTTCC
**
38420308 GAGCCATATAACAAGAAGCTCATGCA
1 GAGCCATATAACGGGAAGCTCATG-A
* * *
38420334 -AGCTATATAACGGGAAGCTCTTGC
1 GAGCCATATAACGGGAAGCTCATGA
* * * *
38420358 TAGCCAAATATCAGGAAGCTCAT-A
1 GAGCCATATAACGGGAAGCTCATGA
*
38420382 CGAGCCATA-AACGGGAAGCTCAAGA
1 -GAGCCATATAACGGGAAGCTCATGA
*
38420407 GAGCCAT-TAATGGGGAAGCTCATGA
1 GAGCCATATAA-CGGGAAGCTCATGA
* * * **
38420432 GAGCCAGATATCGGGAGGCTTGTGA
1 GAGCCATATAACGGGAAGCTCATGA
38420457 GAGCCATATAACGGGA
1 GAGCCATATAACGGGA
38420473 TGTTCATAAG
Statistics
Matches: 107, Mismatches: 26, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
24 20 0.19
25 85 0.79
26 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:38420510 original size:25 final size:25
Alignment explanation
Indices: 38420482--38420537 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
38420472 ATGTTCATAA
38420482 GAGCTAAATAAGGAGACGCTCTTGC
1 GAGCTAAATAAGGAGACGCTCTTGC
38420507 GAGCTAAATAAGGAGACGCTCTTGC
1 GAGCTAAATAAGGAGACGCTCTTGC
38420532 GAGCTA
1 GAGCTA
38420538 TGGTGTGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (25 bp):
GAGCTAAATAAGGAGACGCTCTTGC
Found at i:38429373 original size:24 final size:24
Alignment explanation
Indices: 38429327--38429375 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
38429317 TATGAAGAGC
**
38429327 TAAGGAAGATGAAAGGTGGAAGGT
1 TAAGGAAGATGAAAGGTAAAAGGT
38429351 TAAGAGAA-ATGAAAGGTAAAAGGT
1 TAAG-GAAGATGAAAGGTAAAAGGT
38429375 T
1 T
38429376 GAATAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.18
Consensus pattern (24 bp):
TAAGGAAGATGAAAGGTAAAAGGT
Found at i:38431478 original size:24 final size:22
Alignment explanation
Indices: 38431436--38431485 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
38431426 GTAGAATCAT
*
38431436 TTTTTTCATAATTTAAATTTTATA
1 TTTTTTCATAATCTAAA--TTATA
38431460 TTTTTTCAATAATCT-AATTATA
1 TTTTTTC-ATAATCTAAATTATA
38431482 TTTT
1 TTTT
38431486 ATATTTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.38
24 9 0.38
25 6 0.25
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTCATAATCTAAATTATA
Found at i:38434867 original size:21 final size:20
Alignment explanation
Indices: 38434821--38434886 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
38434811 TAACTCTCAT
*
38434821 ATTTAGGGCTTGAGTTTAAGG
1 ATTTAGGTCTTGAGTTTAA-G
* *
38434842 GTTTAGAGTCTTGGGTTTAAG
1 ATTTAG-GTCTTGAGTTTAAG
*
38434863 ATTTAGGGTCTCGAGTTT-AG
1 ATTTA-GGTCTTGAGTTTAAG
38434883 ATTT
1 ATTT
38434887 TATATTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
20 6 0.16
21 19 0.51
22 12 0.32
ACGTcount: A:0.21, C:0.06, G:0.30, T:0.42
Consensus pattern (20 bp):
ATTTAGGTCTTGAGTTTAAG
Found at i:38449047 original size:35 final size:35
Alignment explanation
Indices: 38449008--38449075 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
38448998 CTTTGGAAGA
38449008 AGGGAAAGAAGTGAAAATCGAAACTTGCATAACCG
1 AGGGAAAGAAGTGAAAATCGAAACTTGCATAACCG
* * * *
38449043 AGGGAAAGAGGTGCAAATTGGAACTTGCATAAC
1 AGGGAAAGAAGTGAAAATCGAAACTTGCATAAC
38449076 TGAGAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.28, T:0.16
Consensus pattern (35 bp):
AGGGAAAGAAGTGAAAATCGAAACTTGCATAACCG
Found at i:38453352 original size:44 final size:44
Alignment explanation
Indices: 38453304--38453388 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
38453294 TTATCTTTCC
* *
38453304 AAGCAGTAGCGGAATAG-GCTGAAGATTGCAAATCTTATCTCCTT
1 AAGCAGTAGCGGAATAGATC-GAAGATAGCAAATCTTATCTCCTT
* * *
38453348 AAGCAGTAGTGGAGTAGATCGAAGATAGCGAATCTTATCTC
1 AAGCAGTAGCGGAATAGATCGAAGATAGCAAATCTTATCTC
38453389 TATGTATCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (44 bp):
AAGCAGTAGCGGAATAGATCGAAGATAGCAAATCTTATCTCCTT
Found at i:38453446 original size:132 final size:132
Alignment explanation
Indices: 38453199--38453785 Score: 712
Period size: 132 Copynumber: 4.4 Consensus size: 132
38453189 TGGTGAATTC
* * * *
38453199 ACAGGTCTTATATCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGCGAATCTTATCTCCATGTAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAG
* * * * * **
38453264 CGGTAATAGAGCAGATTAAAGCCACTAGCCTTATCTTTCC-AAGCAGTAGCGGAATAGGCTGAAG
66 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATC-TCCCTAAGCAATAGCGGAGCAGGCTGAAG
38453328 ATT
130 ATT
* * * * ** * *
38453331 GCAAATCTTATCTCCTTAAGCAGTAGTGGAGTAGATCGAAGATAGCGAATCTTATCTCTATGTAT
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAG
* *
38453396 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCTCTAAGCAATAGCGGAGCATGCTGAAGA
66 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAAGA
38453461 TT
131 TT
* * * *
38453463 ACATG-TCTTATCTTCCTAAGCAGTGGTGGAGCAGACCAAAGACGGCGAA-CATTATCTCCATGT
1 ACA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATC-TTATCTCCATGT
** **
38453526 AGTGGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGATTGAA
64 AGCAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAA
38453591 GATT
129 GATT
* * **
38453595 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATACAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAG
* * ** * *
38453660 CAGCACTGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCGGTAGTGGAGCAGGCTGATGA
66 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAAGA
38453725 TT
131 TT
* * * * * **
38453727 GCAGATCTTATCTCTCTAAGCAGTAGTAGAGCAGATTGAAGACGGTGAGCCTTATCTCC
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCC
38453786 CTGAACAACA
Statistics
Matches: 387, Mismatches: 63, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
131 4 0.01
132 382 0.99
133 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAG
CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAAGA
TT
Found at i:38453605 original size:44 final size:44
Alignment explanation
Indices: 38453556--38453854 Score: 225
Period size: 44 Copynumber: 6.8 Consensus size: 44
38453546 AAGCCACTAG
* *
38453556 CCTTATCTCCCTAAGCAATAGCGGAGCAGATTGAAGATTACAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGA
* * **
38453600 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GAA
1 CCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAG-A
* * * * **
38453644 CCTTATCTCCATACAGCAGCACTGGAGCAGATTTAAG-CCACTAG-
1 CCTTATCTCCCTA-AGCAGTAGTGGAGCAGATTGAAGATTAC-AGA
* ** * *
38453688 CCTTATCTCCCTAAGCGGTAGTGGAGCAGGCTGATGATTGCAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGA
* * * * *
38453732 TCTTATCTCTCTAAGCAGTAGTAGAGCAGATTGAAGACGGT-GAG-
1 CCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA--TTACAGA
** * **
38453776 CCTTATCTCCCTGAA-CAACAGTGGAGTAGGCTGAAGATTACAG-
1 CCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGATTACAGA
* *
38453819 CTCATATCTCCTTAAGCAGTAGTGGAGCAGATTGAA
1 C-CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
38453855 ACGAAAATTC
Statistics
Matches: 191, Mismatches: 52, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
42 1 0.01
43 24 0.13
44 141 0.74
45 23 0.12
46 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
CCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTACAGA
Found at i:38453827 original size:132 final size:132
Alignment explanation
Indices: 38453199--38453854 Score: 487
Period size: 132 Copynumber: 5.0 Consensus size: 132
38453189 TGGTGAATTC
* * * * * * **
38453199 ACAGGTCTTATATCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGCGAATCTTATCTCCATGTAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAACCTTATCTCCATACAG
*** * * * * * * * ** *
38453264 CGGTAATAGAGCAGATTAAAGCCACTAGCCTTATCTTTCC-AAGCAGTAGCGGAATAGGCTGAAG
66 CAACACTGGAGCAGACTGAAGCCACTAGCCATATC-TCCCTAAGCAGTAGTGGAGCAGACTGAAG
38453328 ATT
130 ATT
* * * * * ** * * ** *
38453331 GCAAATCTTATCTCCTTAAGCAGTAGTGGAGTAGATCGAAGATAGCGAATCTTATCTCTATGTAT
1 ACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAACCTTATCTCCATACAG
* * * * * * * *
38453396 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCTCTAAGCAATAGCGGAGCATG-CTGAAG
66 CAACACTGGAGCAGACTGAAGCCACTAGCCATATCTCCCTAAGCAGTAGTGGAGCA-GACTGAAG
38453460 ATT
130 ATT
* * * * * * **
38453463 ACATG-TCTTATCTTCCTAAGCAGTGGTGGAGCAGACCAAAGACGGCGAACATTATCTCCATGTA
1 ACA-GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAACCTTATCTCCATACA
*** * * * * * * *
38453527 GTGGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGATTGAAG
65 GCAACACTGGAGCAGACTGAAGCCACTAGCCATATCTCCCTAAGCAGTAGTGGAGCAGACTGAAG
38453592 ATT
130 ATT
* *
38453595 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATACAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAACCTTATCTCCATACAG
* * * * * * *
38453660 CAGCACTGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCGGTAGTGGAGCAGGCTGATGA
66 CAACACTGGAGCAGACTGAAGCCACTAGCCATATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGA
38453725 TT
131 TT
* * * * * *
38453727 GCAGATCTTATCTCTCTAAGCAGTAGTAGAGCAGATTGAAGACGGTGAGCCTTATCTCCCTGA-A
1 ACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAACCTTATCTCCAT-ACA
* * * ** * *
38453791 -CAACAGTGGAGTAGGCTGAAGATTAC-AGCTCATATCTCCTTAAGCAGTAGTGGAGCAGATTGA
65 GCAACACTGGAGCAGACTGAAG-CCACTAGC-CATATCTCCCTAAGCAGTAGTGGAGCAGACTGA
38453854 A
128 A
38453855 ACGAAAATTC
Statistics
Matches: 438, Mismatches: 78, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
131 22 0.05
132 414 0.95
133 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAACCTTATCTCCATACAG
CAACACTGGAGCAGACTGAAGCCACTAGCCATATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGA
TT
Found at i:38453829 original size:264 final size:264
Alignment explanation
Indices: 38453203--38453854 Score: 677
Period size: 264 Copynumber: 2.5 Consensus size: 264
38453193 GAATTCACAG
* * * * **
38453203 GTCTTATATCCCTAAGCAGTAGTGGAGCAGACCAAAGACGGCGAATC-TTATCTCCATGTAGCGG
1 GTCTTATCTTCCTAAGCAGTAGTAGAGCAGACCAAAGACGGCGAA-CATTATCTCCATGTAACAA
* * * * * * ** **
38453267 TAATAGAGCAGATTAAAGCCACTAGCCTTATCTTTCC-AAGCAGTAGCGGAATAGGCTGAAGATT
65 CAATGGAGCAGACTAAAGCCACTAGCCATATC-TCCCTAAGCAATAGCGGAGCAGATTGAAGATT
* * * * * ** *
38453331 GCAAATCTTATCTCCTTAAGCAGTAGTGGAGTAGATCGAAGATAGCGAATCTTATCTCTATGTAT
129 ACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCGAACCTTATCTCCATACAG
* *
38453396 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCTCTAAGCAATAGCGGAGCATGCTGAAGA
194 CAGCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAAGA
38453461 TTACAT
259 TTACAT
* * ****
38453467 GTCTTATCTTCCTAAGCAGTGGTGGAGCAGACCAAAGACGGCGAACATTATCTCCATGTAGTGGC
1 GTCTTATCTTCCTAAGCAGTAGTAGAGCAGACCAAAGACGGCGAACATTATCTCCATGTAACAAC
* *
38453532 AATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGATTGAAGATTAC
66 AATGGAGCAGACTAAAGCCACTAGCCATATCTCCCTAAGCAATAGCGGAGCAGATTGAAGATTAC
* *
38453597 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAACCTTATCTCCATACAGCA
131 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCGAACCTTATCTCCATACAGCA
* * ** * *
38453662 GCACTGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCGGTAGTGGAGCAGGCTGATGATT
196 GCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAAGATT
*
38453727 GCA-
261 ACAT
*** * * * *
38453730 GATCTTATC-TCTCTAAGCAGTAGTAGAGCAGATTGAAGACGGTGAGCCTTATCTCCCTG-AACA
1 G-TCTTATCTTC-CTAAGCAGTAGTAGAGCAGACCAAAGACGGCGAACATTATCTCCATGTAACA
* * * * ** * * *
38453793 ACAGTGGAGTAGGCTGAAGATTAC-AGCTCATATCTCCTTAAGCAGTAGTGGAGCAGATTGAA
64 ACAATGGAGCAGACTAAAG-CCACTAGC-CATATCTCCCTAAGCAATAGCGGAGCAGATTGAA
38453855 ACGAAAATTC
Statistics
Matches: 327, Mismatches: 55, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
263 24 0.07
264 303 0.93
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (264 bp):
GTCTTATCTTCCTAAGCAGTAGTAGAGCAGACCAAAGACGGCGAACATTATCTCCATGTAACAAC
AATGGAGCAGACTAAAGCCACTAGCCATATCTCCCTAAGCAATAGCGGAGCAGATTGAAGATTAC
AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCGAACCTTATCTCCATACAGCA
GCAATGGAGCAGATTAAAGCCACTAGCCTTATCTCCCTAAGCAATAGCGGAGCAGGCTGAAGATT
ACAT
Found at i:38460497 original size:46 final size:46
Alignment explanation
Indices: 38460445--38460630 Score: 327
Period size: 46 Copynumber: 4.0 Consensus size: 46
38460435 GCTTTCTAAA
*
38460445 ATGAAATGTGTAAGACTATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
*
38460491 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
*
38460537 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
38460583 ATGAAATGTGTAAGACCATGGTTGAAAGATACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAG--ACACCATGGCAACATGAT
38460631 TACCATGGCA
Statistics
Matches: 135, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
46 118 0.87
48 17 0.13
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
Found at i:38460655 original size:65 final size:63
Alignment explanation
Indices: 38460566--38460689 Score: 212
Period size: 65 Copynumber: 1.9 Consensus size: 63
38460556 GGTTGAAAGA
* *
38460566 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACACCATGGCAACATGAT
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT--ACCATGGCAACATGAT
38460631 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
38460690 GGATATAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
63 12 0.21
65 45 0.79
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (63 bp):
TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:38460655 original size:111 final size:109
Alignment explanation
Indices: 38460520--38460735 Score: 378
Period size: 111 Copynumber: 2.0 Consensus size: 109
38460510 GGTTGAAAGA
* * *
38460520 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
*
38460585 GAAATGTGTAAGACCATGGTTGAAAGATACACCATGGCAACATGAT
66 AAAATGTGTAAGACCATGGTTGAAAGAT--ACCATGGCAACATGAT
38460631 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
38460696 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
66 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
38460736 GGATATAAAA
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 12 0.12
111 89 0.88
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (109 bp):
TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:38460683 original size:46 final size:46
Alignment explanation
Indices: 38460631--38461007 Score: 524
Period size: 46 Copynumber: 8.2 Consensus size: 46
38460621 GCAACATGAT
38460631 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
38460677 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
38460723 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
38460769 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
38460815 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
* **** ** *
38460861 TACCATGGCAACATGA-CGGGAATGAATAAGACCATGTTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
* * * * ***
38460906 TACCATGGCAA-TGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TACCATGGCAACAG-GATATAAAATGTGTAAGACCATGGTTGAAAGA
* ** * * *
38460952 TACCATGACAACCTGATAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
* *
38460998 CACTATGGCA
1 TACCATGGCA
38461008 TCATGTCAAA
Statistics
Matches: 299, Mismatches: 29, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
45 34 0.11
46 265 0.89
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGA
Found at i:38460805 original size:138 final size:137
Alignment explanation
Indices: 38460631--38461007 Score: 522
Period size: 137 Copynumber: 2.7 Consensus size: 137
38460621 GCAACATGAT
38460631 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
* **
38460696 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGG
66 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGA-AGAAAATGAATAAGACCATGG
38460761 TTGAAAGA
130 TTGAAAGA
38460769 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
1 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
* * ** *
38460834 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGTT
66 AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAAGAAAATGAATAAGACCATGGT
38460899 TGAAAGA
131 TGAAAGA
* * * * *** * **
38460906 TACCATGGCAA-TGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGACAACCTGATA
1 TACCATGGCAACAG-GATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATA
* * * * *
38460970 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
65 TAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
38461008 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
136 1 0.00
137 107 0.50
138 107 0.50
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (137 bp):
TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAAGAAAATGAATAAGACCATGGT
TGAAAGA
Found at i:38461314 original size:16 final size:17
Alignment explanation
Indices: 38461293--38461325 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38461283 ATGATGTAGC
38461293 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
38461309 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
38461326 TAGTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:38464885 original size:4 final size:4
Alignment explanation
Indices: 38464878--38464923 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
38464868 TATATAGTGG
38464878 GAAA GAAA G-AA G-AA GAAA -AAGA GAAA GAAA GAAA GAAA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA
38464923 G
1 G
38464924 TGAACAATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 11 0.29
4 25 0.66
5 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:38465102 original size:27 final size:27
Alignment explanation
Indices: 38465064--38465121 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
38465054 ACGCGTTTGT
*
38465064 TTAGGTAATGATGGAAGAATTTCTAAC
1 TTAGATAATGATGGAAGAATTTCTAAC
* * *
38465091 TTAGATAATGATGGAGGAATTTTTGAC
1 TTAGATAATGATGGAAGAATTTCTAAC
38465118 TTAG
1 TTAG
38465122 GTACCGGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (27 bp):
TTAGATAATGATGGAAGAATTTCTAAC
Found at i:38466251 original size:16 final size:17
Alignment explanation
Indices: 38466232--38466268 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
38466222 TTTTTTTCTA
38466232 AATTTAAT-TTTAAATT
1 AATTTAATATTTAAATT
*
38466248 AA-TTAATATTTTAATT
1 AATTTAATATTTAAATT
38466264 AATTT
1 AATTT
38466269 TTAATAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 11 0.61
17 2 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTAATATTTAAATT
Found at i:38473879 original size:3 final size:3
Alignment explanation
Indices: 38473871--38473913 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
38473861 TTTTTGATGC
38473871 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38473914 TTTGCTCTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38486758 original size:17 final size:18
Alignment explanation
Indices: 38486733--38486766 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38486723 TGATTAATGT
38486733 AAATATTTTAATAATTTC
1 AAATATTTTAATAATTTC
*
38486751 AAAT-TTTTAGTAATTT
1 AAATATTTTAATAATTT
38486767 TAATAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
AAATATTTTAATAATTTC
Found at i:38493470 original size:10 final size:10
Alignment explanation
Indices: 38493455--38493481 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38493445 TTGAATTGAG
38493455 TTTTTTTAAT
1 TTTTTTTAAT
38493465 TTTTTTTAAT
1 TTTTTTTAAT
38493475 TTTTTTT
1 TTTTTTT
38493482 GTTTTGGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:38496063 original size:16 final size:16
Alignment explanation
Indices: 38496042--38496074 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38496032 TTGGCAGAAA
38496042 TGTCTCA-AAGGACTGT
1 TGTCTCAGAA-GACTGT
38496058 TGTCTCAGAAGACTGT
1 TGTCTCAGAAGACTGT
38496074 T
1 T
38496075 ATTTATGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (16 bp):
TGTCTCAGAAGACTGT
Found at i:38506746 original size:17 final size:17
Alignment explanation
Indices: 38506724--38506757 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38506714 AAATAAAAAA
38506724 TTTTTGAATAATTCAAT
1 TTTTTGAATAATTCAAT
*
38506741 TTTTTGAATGATTCAAT
1 TTTTTGAATAATTCAAT
38506758 AACTTAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTTTGAATAATTCAAT
Found at i:38524494 original size:25 final size:25
Alignment explanation
Indices: 38524460--38524509 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
38524450 CCATGTATAA
38524460 TTGGTTATATTGGCAACATTGCATG
1 TTGGTTATATTGGCAACATTGCATG
38524485 TTGGTTATATTGGCAACATTGCATG
1 TTGGTTATATTGGCAACATTGCATG
38524510 GTGGATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (25 bp):
TTGGTTATATTGGCAACATTGCATG
Found at i:38526764 original size:50 final size:50
Alignment explanation
Indices: 38526652--38526929 Score: 245
Period size: 50 Copynumber: 5.5 Consensus size: 50
38526642 CTAGTATGCA
* * * * * *
38526652 TAGTAGCCTGCATTTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* *
38526701 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* * * * * * * * * *
38526751 TAGTAGCCCGCACTTAGTACTACATACGTGATCGAAGTTGTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACACG
* * * *
38526802 TAATAGCCTGAACTTAGTACTACACATGCGACCTAACTATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA-TACACG
* * * * *
38526852 TAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACTTTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTATCTGATACACG
* *
38526904 TAGTAGCTTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
38526930 TGCAGGGGCG
Statistics
Matches: 180, Mismatches: 43, Indels: 9
0.78 0.19 0.04
Matches are distributed among these distances:
49 30 0.17
50 80 0.44
51 34 0.19
52 35 0.19
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
Found at i:38528856 original size:37 final size:37
Alignment explanation
Indices: 38528806--38528999 Score: 153
Period size: 37 Copynumber: 5.2 Consensus size: 37
38528796 ATATGACATC
* *
38528806 ATATACTAAATGAAGCTCAAACAAGC-AAACCTTACCG
1 ATATACTAAATGAAGCTCAAACGAGCAAAATC-TACCG
* * *
38528843 ATATATTAAATGAAGCTCAAATGAGCAAAATCTACTG
1 ATATACTAAATGAAGCTCAAACGAGCAAAATCTACCG
* *
38528880 ATATACTGAATGAAGCTCAAACGAGCAAAATCTACAG
1 ATATACTAAATGAAGCTCAAACGAGCAAAATCTACCG
* * * * * *
38528917 ATATGCTGAA-GAGAGCTC-AACTGAGCGAGATATACAG
1 ATATACTAAATGA-AGCTCAAAC-GAGCAAAATCTACCG
* ** *
38528954 ATATACTAAAAT-AAGGCTCAATCGAGCATTATCTACTG
1 ATATACT-AAATGAA-GCTCAAACGAGCAAAATCTACCG
38528992 AGTATACT
1 A-TATACT
38529000 GAACTACCGA
Statistics
Matches: 128, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
36 5 0.04
37 93 0.73
38 22 0.17
39 8 0.06
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (37 bp):
ATATACTAAATGAAGCTCAAACGAGCAAAATCTACCG
Found at i:38528934 original size:74 final size:74
Alignment explanation
Indices: 38528806--38528963 Score: 176
Period size: 74 Copynumber: 2.1 Consensus size: 74
38528796 ATATGACATC
* *
38528806 ATATACTAAATGAAGCTCAAACAAGCAAACCTTACCGATATATTAAATGAAGCTCAAATGAGCAA
1 ATATACTAAATGAAGCTCAAACAAGCAAACCTTACAGATATACTAAATGAAGCTCAAATGAGCAA
* *
38528871 AATCTACTG
66 AATATACAG
* * * * * *
38528880 ATATACTGAATGAAGCTCAAACGAGCAAA-ATCTACAGATATGCTGAA-GAGAGCTCAACTGAGC
1 ATATACTAAATGAAGCTCAAACAAGCAAACCT-TACAGATATACTAAATGA-AGCTCAAATGAGC
* *
38528943 GAGATATACAG
64 AAAATATACAG
38528954 ATATACTAAA
1 ATATACTAAA
38528964 ATAAGGCTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
73 3 0.04
74 66 0.96
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.22
Consensus pattern (74 bp):
ATATACTAAATGAAGCTCAAACAAGCAAACCTTACAGATATACTAAATGAAGCTCAAATGAGCAA
AATATACAG
Found at i:38537312 original size:46 final size:45
Alignment explanation
Indices: 38537169--38537383 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 45
38537159 TGTGAGCTAC
* * * *
38537169 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA-AGCCAG
* *** * *
38537215 TGTAAGACCATGTCTAGGACATGGCATCGATATTGAGACGAATGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAA-GCCAG
* *
38537263 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAAGCCTG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCCAG
* * * *
38537309 TGTAAGATATGTCTGGGACATGCATCGG-CTACGAGATG-TGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAAGCCAG
38537353 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
38537384 AAAAATATGT
Statistics
Matches: 137, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.45
47 30 0.22
48 19 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCCAG
Found at i:38539790 original size:37 final size:37
Alignment explanation
Indices: 38539740--38539818 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38539730 TTATTACGAA
* * *
38539740 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38539777 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38539814 GTCTT
1 GTCTT
38539819 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38540015 original size:47 final size:47
Alignment explanation
Indices: 38539939--38540067 Score: 186
Period size: 47 Copynumber: 2.7 Consensus size: 47
38539929 CTTCGGGACT
* * * * *
38539939 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
38539986 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
38540033 TATCACATATATACACTTTCACATTCATCACATCG
1 TATCACATATATACACTTTCACATTCATCACATCG
38540068 AATCCTAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:38541991 original size:56 final size:56
Alignment explanation
Indices: 38541924--38542043 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38541914 TATTAGTTTA
38541924 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
38541980 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38542036 TTGCCCAT
1 TTGCCCAT
38542044 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:38544477 original size:30 final size:29
Alignment explanation
Indices: 38544437--38544498 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
38544427 ACTTAACAAG
38544437 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAA-AAAATTAA
*
38544467 CAAATGCCTCTAAAATAATAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAATTAA
38544496 CAA
1 CAA
38544499 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.23
Consensus pattern (29 bp):
CAAATACCTCTAAAATAATAAAAAATTAA
Found at i:38547980 original size:18 final size:18
Alignment explanation
Indices: 38547957--38547995 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38547947 TAACAAATAA
38547957 TAATTATAGGCCAAGCAC
1 TAATTATAGGCCAAGCAC
38547975 TAATTATAGGCCAAGCAC
1 TAATTATAGGCCAAGCAC
38547993 TAA
1 TAA
38547996 CTTAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (18 bp):
TAATTATAGGCCAAGCAC
Found at i:38550580 original size:220 final size:220
Alignment explanation
Indices: 38550198--38550638 Score: 828
Period size: 220 Copynumber: 2.0 Consensus size: 220
38550188 GTAAAATTTA
38550198 AAAAAAAATTAAAAAATTAAGCAAAAAATTTTATGAGAAATCAGTTGAGCTCCAACTTGATTTTA
1 AAAAAAAATTAAAAAATTAAGCAAAAAATTTTATGAGAAATCAGTTGAGCTCCAACTTGATTTTA
*
38550263 ACCTTCATGTTGGGCTTTGAGGGCCCAAATAAAGGTCGTTATATATATGATTTCAAAAAGTGAAT
66 ACCTTCATGTTGGGCTTCGAGGGCCCAAATAAAGGTCGTTATATATATGATTTCAAAAAGTGAAT
38550328 AGTAATGTTTCGATTAATCTGTAAATGTTCTGTATGTACTGGTAACACTCTGTAACCCTGTTTCG
131 AGTAATGTTTCGATTAATCTGTAAATGTTCTGTATGTACTGGTAACACTCTGTAACCCTGTTTCG
*
38550393 GCGAAGGATACGGGTTAGGGGTGTT
196 ACGAAGGATACGGGTTAGGGGTGTT
**
38550418 AAAAAAAATTAAAAAATTAAGTGAAAAATTTTATGAGAAATCAGTTGAGCTCCAACTTGATTTTA
1 AAAAAAAATTAAAAAATTAAGCAAAAAATTTTATGAGAAATCAGTTGAGCTCCAACTTGATTTTA
38550483 ACCTTCATGTTGGGCTTCGAGGGCCCAAATAAAGGTCGTTATATATATGATTTCAAAAAGTGAAT
66 ACCTTCATGTTGGGCTTCGAGGGCCCAAATAAAGGTCGTTATATATATGATTTCAAAAAGTGAAT
38550548 AGTAATGTTTCGATTAATCTGTAAATGTTCTGTATGTACTGGTAACACTCTGTAACCCTGTTTCG
131 AGTAATGTTTCGATTAATCTGTAAATGTTCTGTATGTACTGGTAACACTCTGTAACCCTGTTTCG
* *
38550613 ACGATGGATACGTGTTAGGGGTGTT
196 ACGAAGGATACGGGTTAGGGGTGTT
38550638 A
1 A
38550639 CAAAGCCATA
Statistics
Matches: 215, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
220 215 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (220 bp):
AAAAAAAATTAAAAAATTAAGCAAAAAATTTTATGAGAAATCAGTTGAGCTCCAACTTGATTTTA
ACCTTCATGTTGGGCTTCGAGGGCCCAAATAAAGGTCGTTATATATATGATTTCAAAAAGTGAAT
AGTAATGTTTCGATTAATCTGTAAATGTTCTGTATGTACTGGTAACACTCTGTAACCCTGTTTCG
ACGAAGGATACGGGTTAGGGGTGTT
Found at i:38554736 original size:21 final size:21
Alignment explanation
Indices: 38554679--38554727 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
38554669 AATTTAATTA
*
38554679 AAATATTTAAACTAT-AT-TTT
1 AAATATTTAAA-TATAATCATT
38554699 AAATATTTAAATATAATCATT
1 AAATATTTAAATATAATCATT
38554720 AAATATTT
1 AAATATTT
38554728 GTAATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATATTTAAATATAATCATT
Found at i:38564160 original size:23 final size:23
Alignment explanation
Indices: 38564134--38564177 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
38564124 GTAATTAAAG
*
38564134 CATAAATAACAATGCATTATTTA
1 CATAAATAACAATGCAATATTTA
38564157 CATAAATAACAATGCAATATT
1 CATAAATAACAATGCAATATT
38564178 AAAGTAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (23 bp):
CATAAATAACAATGCAATATTTA
Found at i:38576333 original size:32 final size:32
Alignment explanation
Indices: 38576297--38576360 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
38576287 ACACCCGAGT
38576297 TAGTTAAATTAAACTACAAGGATCACAAAAAC
1 TAGTTAAATTAAACTACAAGGATCACAAAAAC
*
38576329 TAGTTAAATTAAACTACAAGGATCATAAAAAC
1 TAGTTAAATTAAACTACAAGGATCACAAAAAC
38576361 ATTAAAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (32 bp):
TAGTTAAATTAAACTACAAGGATCACAAAAAC
Found at i:38579098 original size:18 final size:20
Alignment explanation
Indices: 38579062--38579108 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38579052 GGTTGTAAGT
38579062 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38579082 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38579101 ATGATATA
1 AT-ATATA
38579109 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38579538 original size:50 final size:50
Alignment explanation
Indices: 38579457--38579851 Score: 353
Period size: 50 Copynumber: 7.9 Consensus size: 50
38579447 TTTGTTGTGA
* * *
38579457 GTCACTTGTGTAGTTCTAAGTGCAGGCTACTACGTGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *** * * *
38579507 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCCCACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
38579558 ATCACATGTGTAGTACTAAGTGTAGGCTAATACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
38579608 GTCACGTGTGTAGTACTAAGTGCAGGTTGCTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** * * * * *
38579658 GTCGCATGTACAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
38579709 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
38579759 GTCACGTGTATAGTACTAAGTTCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
38579809 GTCGCATGTGTAGTACTAAGTGTAGGCTACTATGGGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38579852 GAGCTTCGAT
Statistics
Matches: 262, Mismatches: 77, Indels: 12
0.75 0.22 0.03
Matches are distributed among these distances:
49 6 0.02
50 186 0.71
51 68 0.26
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:38579714 original size:101 final size:101
Alignment explanation
Indices: 38579609--38579790 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
38579599 GATGGTTAAG
* * * * * *
38579609 TCACGTGTGTAGTACTAAGTGCAGGTTGCTACGTGTACCAGATTGATAGGTCGCATGTACAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGATAAGTCACATGTACAGTAC
38579674 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
* * * *
38579710 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGATAAGTCACATGTACAGTAC
*
38579775 TAAGTTCAGGCTACTA
66 TAAGTGCAGGCTACTA
38579791 CGTGTACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGATAAGTCACATGTACAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
Found at i:38579861 original size:151 final size:151
Alignment explanation
Indices: 38579456--38579848 Score: 633
Period size: 151 Copynumber: 2.6 Consensus size: 151
38579446 ATTTGTTGTG
* * *
38579456 AGTCACTTGTGTAGTTCTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
** *
38579521 ACTAAGTGCAGGCTACTATGCCCACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCT
*
38579586 AATACGTGTATCAGATGGTTA
131 AATACATGTATCAGATGGTTA
* * **
38579607 AGTCACGTGTGTAGTACTAAGTGCAGGTTGCTACGTGTACCAGATTGATAGGTCGCATGTACAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
38579672 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCT
*
38579737 ACTACATGTATCAGATGGTTA
131 AATACATGTATCAGATGGTTA
* *
38579758 AGTCACGTGTATAGTACTAAGTTCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
38579823 ACTAAGTGTAGGCTACTATGGGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
38579849 AGAGAGCTTC
Statistics
Matches: 221, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 221 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCT
AATACATGTATCAGATGGTTA
Found at i:38580072 original size:16 final size:16
Alignment explanation
Indices: 38580051--38580082 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38580041 AGAATAGAGT
38580051 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38580067 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38580083 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38583440 original size:24 final size:23
Alignment explanation
Indices: 38583375--38583442 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
38583365 TATCCTTCCC
* * *
38583375 CCATCCTCTACACTCCATCTTCGA
1 CCATCC-CTACACACCATGTCCGA
38583399 CCATCCCTACACACCATGTNCCGA
1 CCATCCCTACACACCATGT-CCGA
*
38583423 CCATCCCTACACGCCATGTC
1 CCATCCCTACACACCATGTC
38583443 GGGTTTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
23 12 0.31
24 27 0.69
ACGTcount: A:0.22, C:0.47, G:0.07, T:0.22
Consensus pattern (23 bp):
CCATCCCTACACACCATGTCCGA
Found at i:38585015 original size:18 final size:20
Alignment explanation
Indices: 38584979--38585025 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38584969 AGTTTTAAGT
38584979 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38584999 ATAT-TATGTGAGTATTTTG
1 ATATATATGTGAATAATTTG
38585018 ATGATATA
1 AT-ATATA
38585026 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38585454 original size:50 final size:50
Alignment explanation
Indices: 38585381--38585717 Score: 315
Period size: 50 Copynumber: 6.7 Consensus size: 50
38585371 TGAGTCACGT
* *
38585381 GTGTAATACTAAGTGCAGACTACTACGTGTACCAGATTGATAGGTCGCAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAC
* * * **
38585431 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TT-A-ACTTCGATCAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG--CAC
* * * * * * * * **
38585480 GTGTGTAGTACTAAGTGTAGGCTAATACATGTATCAGATGGTTAAGTCACGT
1 --GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAC
* *
38585532 GTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAC
* ** * * *
38585582 GTGTAGTACTAAGTGCAGGCTACTACGTGCATTAGATGGTTAAGT--CAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAC
* *
38585630 GTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACAT
1 G--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAC
* * *
38585682 GTGTAGTACTAAGTGTAGGCTACTATGGGTACCAGA
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38585718 GAGCTTCGAT
Statistics
Matches: 228, Mismatches: 48, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
47 4 0.02
48 4 0.02
49 5 0.02
50 179 0.79
51 28 0.12
52 5 0.02
54 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCAC
Found at i:38585619 original size:100 final size:100
Alignment explanation
Indices: 38585432--38585706 Score: 390
Period size: 100 Copynumber: 2.7 Consensus size: 100
38585422 AGGTCGCACG
* * * * * * *
38585432 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGATCACGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACATGTGTAGTACTAAGT
* * *
38585496 GTAGGCTAATACATGTATCAGATGGTTAAGTCACGTG
64 GTAGGCTACTACATGCATCAGATGGTTAAGTCACGTA
* * *
38585533 TGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGT
* *
38585598 AGGCTACTACGTGCATTAGATGGTTAAGTCACGTA
66 AGGCTACTACATGCATCAGATGGTTAAGTCACGTA
38585633 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGT
38585698 AGGCTACTA
66 AGGCTACTA
38585707 TGGGTACCAG
Statistics
Matches: 155, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
100 122 0.79
101 30 0.19
102 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGT
AGGCTACTACATGCATCAGATGGTTAAGTCACGTA
Found at i:38591052 original size:15 final size:15
Alignment explanation
Indices: 38591032--38591061 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38591022 GGTTAATGTA
38591032 GTCATAGGACAGAGG
1 GTCATAGGACAGAGG
38591047 GTCATAGGACAGAGG
1 GTCATAGGACAGAGG
38591062 ACTATGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.40, T:0.13
Consensus pattern (15 bp):
GTCATAGGACAGAGG
Found at i:38599756 original size:16 final size:16
Alignment explanation
Indices: 38599735--38599765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38599725 TTCACTATTA
*
38599735 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
38599751 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
38599766 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:38606349 original size:27 final size:26
Alignment explanation
Indices: 38606311--38606363 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
38606301 AATTGGTTGT
*
38606311 GTTGTCTTAAACGAGCGTCGTAGCGG
1 GTTGTCTTAAACAAGCGTCGTAGCGG
*
38606337 NGTTG-CTTCAAACAAGCGTCGTGGCGG
1 -GTTGTCTT-AAACAAGCGTCGTAGCGG
38606364 CGCTTCGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.25
Consensus pattern (26 bp):
GTTGTCTTAAACAAGCGTCGTAGCGG
Found at i:38611752 original size:13 final size:13
Alignment explanation
Indices: 38611734--38611759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38611724 GGGATTTGTT
38611734 TTATCTAAACTAA
1 TTATCTAAACTAA
38611747 TTATCTAAACTAA
1 TTATCTAAACTAA
38611760 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:38613501 original size:16 final size:16
Alignment explanation
Indices: 38613475--38613513 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
38613465 TTAAGAACTA
*
38613475 ATAATTATTATGTTAAT
1 ATAA-TATTATATTAAT
38613492 ATAATATTATATTAAT
1 ATAATATTATATTAAT
38613508 ATAATA
1 ATAATA
38613514 AACATAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAATATTATATTAAT
Found at i:38613611 original size:17 final size:15
Alignment explanation
Indices: 38613591--38613626 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
38613581 AAGGGAGAAA
38613591 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
38613608 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
38613623 GAAA
1 GAAA
38613627 AATTAGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 1 0.05
17 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:38613611 original size:21 final size:23
Alignment explanation
Indices: 38613587--38613628 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
38613577 AAATAAGGGA
38613587 GAAAGAAAG-AAA-GGAAAAAGG
1 GAAAGAAAGAAAAGGGAAAAAGG
38613608 GAAAGAAAGAAAAGGGAAAAA
1 GAAAGAAAGAAAAGGGAAAAA
38613629 TTAGGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
GAAAGAAAGAAAAGGGAAAAAGG
Found at i:38614348 original size:27 final size:27
Alignment explanation
Indices: 38614316--38614372 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
38614306 AATATATGAA
38614316 TGATTGAAATGT-GTATTGAATTGG-AAT
1 TGATTGAAAT-TAGTATTG-ATTGGAAAT
38614343 TGATTGAAATTAGTATTGATTGGAAAT
1 TGATTGAAATTAGTATTGATTGGAAAT
38614370 TGA
1 TGA
38614373 AAAGTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (27 bp):
TGATTGAAATTAGTATTGATTGGAAAT
Found at i:38619393 original size:3 final size:3
Alignment explanation
Indices: 38619380--38619409 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
38619370 AATGTAAATA
*
38619380 AAG ATG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
38619410 GAGATTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:38622024 original size:21 final size:22
Alignment explanation
Indices: 38622000--38622041 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38621990 TTTCATTATC
38622000 TAAAAATA-TATTAAAAATTAA
1 TAAAAATATTATTAAAAATTAA
*
38622021 TAAAAATATTTTTAAAAATTA
1 TAAAAATATTATTAAAAATTA
38622042 TTTCTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAAATATTATTAAAAATTAA
Found at i:38622071 original size:15 final size:16
Alignment explanation
Indices: 38622051--38622087 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
38622041 ATTTCTATTT
38622051 TTTTTCT-TATTTCCA
1 TTTTTCTATATTTCCA
38622066 TTTTTCTGATATTTCCA
1 TTTTTCT-ATATTTCCA
38622083 TTTTT
1 TTTTT
38622088 TTCTGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTTCTATATTTCCA
Found at i:38622088 original size:19 final size:19
Alignment explanation
Indices: 38622049--38622097 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
38622039 TTATTTCTAT
38622049 TTTTTTTCT--TATTTCCA
1 TTTTTTTCTGATATTTCCA
38622066 --TTTTTCTGATATTTCCA
1 TTTTTTTCTGATATTTCCA
38622083 TTTTTTTCTGATATT
1 TTTTTTTCTGATATT
38622098 CCTTTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.25
17 8 0.29
19 13 0.46
ACGTcount: A:0.14, C:0.14, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTTTCTGATATTTCCA
Found at i:38623724 original size:30 final size:29
Alignment explanation
Indices: 38623688--38623767 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
38623678 TAGTTGACGG
*
38623688 AGAAAAAGTTCAAGTACCAATCTAGGATTA
1 AGAAAAAATTCAAGTACCAATCTAGGA-TA
* *
38623718 A-AAAAAACTTTAAGTACCAATCTATGATA
1 AGAAAAAA-TTCAAGTACCAATCTAGGATA
38623747 AGTAAATAAATTCAAGTACCA
1 AG-AAA-AAATTCAAGTACCA
38623768 GTTTTATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 8 0.19
30 18 0.43
31 13 0.31
32 3 0.07
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (29 bp):
AGAAAAAATTCAAGTACCAATCTAGGATA
Found at i:38630788 original size:24 final size:24
Alignment explanation
Indices: 38630702--38630781 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
38630692 CACCTTATTT
* * *
38630702 TAATCAATGTCAAATATAATATGC
1 TAATAAATGTTAAATATATTATGC
* *
38630726 TAATAAATGTTAAAAATATTATGT
1 TAATAAATGTTAAATATATTATGC
*
38630750 TAATAAATGTTAAATATATTATAC
1 TAATAAATGTTAAATATATTATGC
38630774 TAATAAAT
1 TAATAAAT
38630782 ACTAAATCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (24 bp):
TAATAAATGTTAAATATATTATGC
Found at i:38632853 original size:16 final size:15
Alignment explanation
Indices: 38632827--38632856 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38632817 AGCTGTTTTA
38632827 TTACAAATTTCACTC
1 TTACAAATTTCACTC
38632842 TTACATAATTTCACT
1 TTACA-AATTTCACT
38632857 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:38633186 original size:50 final size:49
Alignment explanation
Indices: 38633068--38633349 Score: 206
Period size: 50 Copynumber: 5.6 Consensus size: 49
38633058 TTGGTACGCA
* * * * * **
38633068 TAGTAACCTACACTTAGTACTACATATGTGACCAACAATC-CAGTACTTG
1 TAGTAGCCTACACTTAGTACTACACATGTGACTAACTATCTGA-TACACG
* * *
38633117 TAGTAGCCTACACTTAGTACTACATACGTGAACTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGTG-ACTAACTATCTGATACACG
* * * * * * * *
38633167 TAGTAGCCTGCACTTAGTACTACACATGTGATTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGTGACT-AA-CTATCTGATACACG
* * *
38633218 TAGTAACCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGA-CTAACTATCTGATACACG
* ** * * * *
38633268 TAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTACACTTAGTACTACACATGTGA-CT--AACTATCTGATACACG
* * *
38633320 TGGTAACCTACACATAGTACTACACATGTG
1 TAGTAGCCTACACTTAGTACTACACATGTG
38633350 TTCTCACAAT
Statistics
Matches: 183, Mismatches: 43, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
49 30 0.16
50 79 0.43
51 38 0.21
52 36 0.20
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACTAACTATCTGATACACG
Found at i:38634792 original size:27 final size:27
Alignment explanation
Indices: 38634744--38634848 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
38634734 GCGAGGCTGC
* *
38634744 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
38634771 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38634797 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38634824 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
38634849 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38635016 original size:28 final size:26
Alignment explanation
Indices: 38634954--38635027 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
38634944 AAATTAACCC
** * *
38634954 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
38634980 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
38635008 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
38635028 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:38636493 original size:26 final size:26
Alignment explanation
Indices: 38636462--38636569 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
38636452 TGAAATGCCC
*
38636462 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38636488 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
38636514 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
38636540 ATCATGGGACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38636566 ATCA
1 ATCA
38636570 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38641850 original size:27 final size:27
Alignment explanation
Indices: 38641802--38641906 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
38641792 GCGAGACTGC
* * *
38641802 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
38641829 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
38641855 CAGATATATATGGCAGAGCCACGAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
38641882 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
38641907 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
26 8 0.12
27 56 0.85
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38643558 original size:26 final size:26
Alignment explanation
Indices: 38643527--38643634 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
38643517 TGAAATGCCC
* *
38643527 ATCATGGAACATTTGCCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38643553 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
38643579 ATGATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
38643605 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38643631 ATCA
1 ATCA
38643635 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38650284 original size:50 final size:50
Alignment explanation
Indices: 38650064--38650309 Score: 194
Period size: 50 Copynumber: 4.9 Consensus size: 50
38650054 CCGAAGCTAT
* * * *
38650064 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-TAATC
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACT-A-C
* * * *
38650114 C-GGTACATGTAATAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAC
** * ** * * **
38650163 CTTATACATGTAGTAGCCTGTGCTTAGTACTACACACGTGA-TTGAAGTTGT
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTAC
* * * * *
38650214 CGGGTACGCATAGTATCCTGCACTTAGTACTACACATGTGACCTAACTAC
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAC
* * * *
38650264 CTGGTACACGTAGTAGCCTGCATTTAGTACTATACACATAACCTAA
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
38650310 AACCATCTTA
Statistics
Matches: 150, Mismatches: 40, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
49 37 0.25
50 78 0.52
51 34 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTAC
Found at i:38655635 original size:21 final size:23
Alignment explanation
Indices: 38655592--38655635 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
38655582 TGTTTGGCTG
*
38655592 TATGTATATGCTTGGATTGGTGT
1 TATGTATATGCTTGGATAGGTGT
*
38655615 TATGT-TATG-TTGTATAGGTGT
1 TATGTATATGCTTGGATAGGTGT
38655636 GTGCATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (23 bp):
TATGTATATGCTTGGATAGGTGT
Found at i:38659784 original size:24 final size:24
Alignment explanation
Indices: 38659757--38659813 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
38659747 AACCTTATTT
*
38659757 CTAATAAATGTCAAATATATTATG
1 CTAATAAATGTCAAATATATTATA
* * * *
38659781 CTAATAGATGTTAGATATTTTATA
1 CTAATAAATGTCAAATATATTATA
38659805 CTAATAAAT
1 CTAATAAAT
38659814 ACTAAATCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATA
Found at i:38662195 original size:26 final size:26
Alignment explanation
Indices: 38662166--38662216 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
38662156 CCACATGGCC
*
38662166 GTGTGAGCCACACGAGCTTACACACT
1 GTGTGAGCCACAAGAGCTTACACACT
*
38662192 GTGTGAGCCACAAGGGCTTACACAC
1 GTGTGAGCCACAAGAGCTTACACAC
38662217 GGCCATGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.18
Consensus pattern (26 bp):
GTGTGAGCCACAAGAGCTTACACACT
Found at i:38663316 original size:5 final size:5
Alignment explanation
Indices: 38663301--38663365 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
38663291 TAATTTAGTC
**
38663301 ATTTT ATTTTT ATTTT ATTTTTT ATTTT ATTTT ATTTT ATTTT -TTAC
1 ATTTT A-TTTT ATTTT A--TTTT ATTTT ATTTT ATTTT ATTTT ATTTT
38663348 ATTTT AATTTT -TTTT ATT
1 ATTTT -ATTTT ATTTT ATT
38663366 CTGACAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 6 0.12
5 29 0.58
6 10 0.20
7 5 0.10
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:38663322 original size:17 final size:16
Alignment explanation
Indices: 38663301--38663344 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
38663291 TAATTTAGTC
38663301 ATTTTATTTTTATTTT
1 ATTTTATTTTTATTTT
*
38663317 ATTTTTTATTTTATTTT
1 ATTTTAT-TTTTATTTT
38663334 ATTTTATTTTT
1 ATTTTATTTTT
38663345 TACATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:38663336 original size:22 final size:23
Alignment explanation
Indices: 38663301--38663365 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 23
38663291 TAATTTAGTC
38663301 ATTTTATTTTTATTTTATTTTTT-
1 ATTTTA-TTTTATTTTATTTTTTA
38663324 ATTTTATTTTATTTTATTTTTTA
1 ATTTTATTTTATTTTATTTTTTA
38663347 CATTTTAATTTT-TTTTATT
1 -ATTTT-ATTTTATTTTATT
38663366 CTGACAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
22 16 0.41
23 6 0.15
24 12 0.31
25 5 0.13
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (23 bp):
ATTTTATTTTATTTTATTTTTTA
Found at i:38668407 original size:25 final size:26
Alignment explanation
Indices: 38668353--38668407 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
38668343 CATAGAAAGA
*
38668353 AAAATAAACAATGAGCAAACCAACAC
1 AAAATAAACAATGAGCAAACCAAAAC
*
38668379 AAAAT-AACAATGA-CAAACACAAAAT
1 AAAATAAACAATGAGCAAAC-CAAAAC
38668404 AAAA
1 AAAA
38668408 ATTGTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.67, C:0.18, G:0.05, T:0.09
Consensus pattern (26 bp):
AAAATAAACAATGAGCAAACCAAAAC
Found at i:38671511 original size:3 final size:3
Alignment explanation
Indices: 38671503--38671532 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38671493 ATTGCTATGG
38671503 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38671533 ATGTGGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38672407 original size:19 final size:19
Alignment explanation
Indices: 38672383--38672422 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
38672373 TTATTTATTC
38672383 CTTTGATTTTCTTTTCCAA
1 CTTTGATTTTCTTTTCCAA
38672402 CTTTGATTTTCTTTTCCAA
1 CTTTGATTTTCTTTTCCAA
38672421 CT
1 CT
38672423 AGCCGAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.57
Consensus pattern (19 bp):
CTTTGATTTTCTTTTCCAA
Found at i:38673409 original size:26 final size:26
Alignment explanation
Indices: 38673357--38673419 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
38673347 TTTTACTGAA
* *
38673357 ATACCCCTAAGTATGAAAATTATCATT
1 ATACCCCT-AGTATGAAAATGACCATT
*
38673384 TTACCCCTAG-ATGCAAAATGACCATT
1 ATACCCCTAGTATG-AAAATGACCATT
38673410 ATACCCCTAG
1 ATACCCCTAG
38673420 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (26 bp):
ATACCCCTAGTATGAAAATGACCATT
Found at i:38673762 original size:20 final size:20
Alignment explanation
Indices: 38673719--38673764 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38673709 ACTGTTTTAT
*
38673719 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATCAA
* *
38673738 AATGGGCCCAACTGTGTCAA
1 TATGGGCCCAACTGTATCAA
38673758 TATGGGC
1 TATGGGC
38673765 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTATCAA
Found at i:38673833 original size:60 final size:60
Alignment explanation
Indices: 38673757--38673891 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 60
38673747 AACTGTGTCA
* * *
38673757 ATATGGGCAAGGCCCAATATA-TCTTGA-CTTGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTC-TGATATTGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
38673817 ATATGGGCTAGGCCCAATATACTCTGATATTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATATTGTAAAGGGCTACGGCCCAGATTAATACTG
38673877 ATATGGGCTAAGGCC
1 ATATGGGCT-AGGCC
38673892 TAGTTAACTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
60 53 0.80
61 13 0.20
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATACTCTGATATTGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:38673884 original size:28 final size:27
Alignment explanation
Indices: 38673793--38673891 Score: 67
Period size: 28 Copynumber: 3.4 Consensus size: 27
38673783 ACTTGTAATA
* *
38673793 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
*
38673821 GGGCTAGGCCCA-ATATACTCTGATATTG-TAAG
1 GGGCTAGGCCCAGAT-TA-----ATATTGAT-AT
38673853 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
38673881 GGGCTAAGGCC
1 GGGCT-AGGCC
38673892 TAGTTAACTT
Statistics
Matches: 56, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
26 2 0.04
27 7 0.12
28 22 0.39
29 2 0.04
31 1 0.02
32 12 0.21
33 8 0.14
34 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:38679678 original size:40 final size:40
Alignment explanation
Indices: 38679571--38679679 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
38679561 CACTAGCTCA
* *
38679571 AAGCCTGCGGAACTTTAAGCCCGG--ATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATATAGTACCAGCACG
*
38679611 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATATAGTACCAGCACG
38679651 AAGCCTGCGGGATTTAACCCGGATATATA
1 AAGCCTGCGGGATTTAACCCGGATATATA
38679680 ATATATCAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 5 0.08
39 5 0.08
40 54 0.84
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATATAGTACCAGCACG
Found at i:38683156 original size:42 final size:42
Alignment explanation
Indices: 38683079--38683277 Score: 195
Period size: 42 Copynumber: 4.7 Consensus size: 42
38683069 GCTCGAAAGC
* ** * *
38683079 TAAACAAAAGCTCATGAGAACTTAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGT
* **
38683121 TGAACAGAAGCTCGTAAGAGCTAAACA-AAATCCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAA-CCCATAAGGGT
* * * * *
38683163 TAAATAGAAGCTTAAAAGAACTGAAC-GAAAACTCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTAAACAG-AAACCCATAAGGGT
* *
38683205 TAAACAGAAGCTCAAAAGAGCTATATAGAAACCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGT
*** *
38683247 TAAACAGAAGCTTGTAAGAGCTAAACGGAAA
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAA
38683278 GTAAAACACG
Statistics
Matches: 126, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.02
42 119 0.94
43 4 0.03
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:38688847 original size:22 final size:21
Alignment explanation
Indices: 38688781--38688848 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
38688771 TATTTTCTAT
**
38688781 TTATATTAGGTTTATTTCTTAA
1 TTATATTA-GTTTATTAATTAA
* * *
38688803 TTAAACTTAGTTAAATTAGTTAA
1 TTATA-TTAGTT-TATTAATTAA
38688826 TTATATTAGTTTACTTAATTAA
1 TTATATTAGTTTA-TTAATTAA
38688848 T
1 T
38688849 CTATCATCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 1 0.03
22 21 0.58
23 14 0.39
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.53
Consensus pattern (21 bp):
TTATATTAGTTTATTAATTAA
Found at i:38694377 original size:5 final size:5
Alignment explanation
Indices: 38694367--38694392 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38694357 ACAGCAGTTC
38694367 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
38694393 ATAAGTAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:38695006 original size:42 final size:40
Alignment explanation
Indices: 38694944--38695031 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 40
38694934 TTTAATTTTC
* * *
38694944 AATTTTTATATTTTTTTGTTAATAAAATTTATTTAATCTAA
1 AATTTTAATATTTTATTGTT-ATAAAAGTTATTTAATCTAA
* * *
38694985 ACTTTTAATAGTTTTATTGTTATTAACGTTATTTAATCTAA
1 AATTTTAATA-TTTTATTGTTATAAAAGTTATTTAATCTAA
38695026 AATTTT
1 AATTTT
38695032 TAGAATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (40 bp):
AATTTTAATATTTTATTGTTATAAAAGTTATTTAATCTAA
Found at i:38696278 original size:20 final size:19
Alignment explanation
Indices: 38696248--38696285 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38696238 TCTATTTTCC
38696248 ATAAAAAATATATAAAATG
1 ATAAAAAATATATAAAATG
*
38696267 ATAAAAATATATTTAAAAT
1 ATAAAAA-ATATATAAAAT
38696286 AATACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATAAAAAATATATAAAATG
Found at i:38697004 original size:22 final size:22
Alignment explanation
Indices: 38696979--38697031 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
38696969 AAGGTATCCA
38696979 TTAAAAAAAAGGTGATAAAAAT
1 TTAAAAAAAAGGTGATAAAAAT
* * * *
38697001 TTAATAGAAATGTTATAAAAAT
1 TTAAAAAAAAGGTGATAAAAAT
38697023 TTAAAAAAA
1 TTAAAAAAA
38697032 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (22 bp):
TTAAAAAAAAGGTGATAAAAAT
Found at i:38699088 original size:126 final size:126
Alignment explanation
Indices: 38698863--38699094 Score: 437
Period size: 126 Copynumber: 1.8 Consensus size: 126
38698853 CTCAATTGTT
* *
38698863 TTTAAAATAATGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
1 TTTAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
38698928 TCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAAA
66 TCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAAA
*
38698989 TTTAAAATAAAGGCAATGTTCAGTATTTAAAGAATTTGAAGAATCGTGCCCTAACGTACTGGGTT
1 TTTAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
38699054 TCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 TCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
38699095 AGGCTAAAAC
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 103 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
TTTAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
TCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAAA
Found at i:38702619 original size:21 final size:21
Alignment explanation
Indices: 38702577--38702621 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
38702567 GAGGGATCAA
* *
38702577 ATGCTGGAGTCCCGGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
38702598 ATGCTGGAGTCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
38702619 ATG
1 ATG
38702622 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:38703474 original size:461 final size:461
Alignment explanation
Indices: 38702612--38703537 Score: 1753
Period size: 461 Copynumber: 2.0 Consensus size: 461
38702602 TGGAGTCACA
*
38702612 GAACAACATGATGAGCCAGCTGACACAGCTGCTGAATGGAGGGTCTGACAAAGGAAAAGGCCCTA
1 GAACAACATGATGAGCCAGCTGACACAGCTGCTGAAGGGAGGGTCTGACAAAGGAAAAGGCCCTA
*
38702677 TGGGTGATAGTGGAAATGACAACGATGACTCTGCTTGTCCTACAAGCTTTGCCCCAATAAACATT
66 TGGGTGATACTGGAAATGACAACGATGACTCTGCTTGTCCTACAAGCTTTGCCCCAATAAACATT
38702742 CAAACACAGCCACCAAGGGTGTCTGTTAATGTTAAACCTCTATATCAAGCTGGCACTTCGGCACC
131 CAAACACAGCCACCAAGGGTGTCTGTTAATGTTAAACCTCTATATCAAGCTGGCACTTCGGCACC
*
38702807 TGTAAACTTCCCATCGGGCTCGTGCTCTAACCTTGGAGACAATATAACAAATCCTACGATCCCTG
196 TGTAAACTTCCCAACGGGCTCGTGCTCTAACCTTGGAGACAATATAACAAATCCTACGATCCCTG
*
38702872 ATTTCAATGAGGTTGAAGGGGACAAAGTAAAGGCAGAGCTCCCAAAACAGCTCGAGGATCAGTAC
261 ATTTCAATGAGGTTGAAGGGGAAAAAGTAAAGGCAGAGCTCCCAAAACAGCTCGAGGATCAGTAC
38702937 AAATGGATAGAGGAGAAGTTCAATGAGCTAGAAAGTGCTGATCATTACTGCGGAGTTGACGCAAA
326 AAATGGATAGAGGAGAAGTTCAATGAGCTAGAAAGTGCTGATCATTACTGCGGAGTTGACGCAAA
*
38703002 GGAACTCAGTTTAGTCCCAGACTTAGTACTTCCTTCGAAGTTCAAGATGCCAGAATTTGAAAGAT
391 GGAACTCAGTTTAGTCCCAGACTTAGTACTTCCTTCGAAGTTCAAGATGCCAGAACTTGAAAGAT
38703067 ATAATG
456 ATAATG
*
38703073 GAACAACATGATGAGCCAGCTGACACAGCTGCTGAAGGGAGGGTCTGACAAAGGAAAGGGCCCTA
1 GAACAACATGATGAGCCAGCTGACACAGCTGCTGAAGGGAGGGTCTGACAAAGGAAAAGGCCCTA
* *
38703138 TGGGTGATACTGGGAATGACAATGATGACTCTGCTTGTCCTACAAGCTTTGCCCCAATAAACATT
66 TGGGTGATACTGGAAATGACAACGATGACTCTGCTTGTCCTACAAGCTTTGCCCCAATAAACATT
38703203 CAAACACAGCCACCAAGGGTGTCTGTTAATGTTAAACCTCTATATCAAGCTGGCACTTCGGCACC
131 CAAACACAGCCACCAAGGGTGTCTGTTAATGTTAAACCTCTATATCAAGCTGGCACTTCGGCACC
* *
38703268 TGTAAACTTCCCAACGGGCTCGTGCTCTAACCTTGGAGACAATATAGCAAATCCTATGATCCCTG
196 TGTAAACTTCCCAACGGGCTCGTGCTCTAACCTTGGAGACAATATAACAAATCCTACGATCCCTG
*
38703333 ATTTCAATGAGGTTGAAGGGGAAAAAGTAAAGGCAGAGCTCCCAAAACAGCTCGAGGATCAGTGC
261 ATTTCAATGAGGTTGAAGGGGAAAAAGTAAAGGCAGAGCTCCCAAAACAGCTCGAGGATCAGTAC
38703398 AAATGGATAGAGGAGAAGTTCAATGAGCTAGAAAGTGCTGATCATTACTGCGGAGTTGACGCAAA
326 AAATGGATAGAGGAGAAGTTCAATGAGCTAGAAAGTGCTGATCATTACTGCGGAGTTGACGCAAA
38703463 GGAACTCAGTTTAGTCCCAGACTTAGTACTTCCTTCGAAGTTCAAGATGCCAGAACTTGAAAGAT
391 GGAACTCAGTTTAGTCCCAGACTTAGTACTTCCTTCGAAGTTCAAGATGCCAGAACTTGAAAGAT
38703528 ATAATG
456 ATAATG
38703534 GAAC
1 GAAC
38703538 TAGCTGCCCT
Statistics
Matches: 454, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
461 454 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (461 bp):
GAACAACATGATGAGCCAGCTGACACAGCTGCTGAAGGGAGGGTCTGACAAAGGAAAAGGCCCTA
TGGGTGATACTGGAAATGACAACGATGACTCTGCTTGTCCTACAAGCTTTGCCCCAATAAACATT
CAAACACAGCCACCAAGGGTGTCTGTTAATGTTAAACCTCTATATCAAGCTGGCACTTCGGCACC
TGTAAACTTCCCAACGGGCTCGTGCTCTAACCTTGGAGACAATATAACAAATCCTACGATCCCTG
ATTTCAATGAGGTTGAAGGGGAAAAAGTAAAGGCAGAGCTCCCAAAACAGCTCGAGGATCAGTAC
AAATGGATAGAGGAGAAGTTCAATGAGCTAGAAAGTGCTGATCATTACTGCGGAGTTGACGCAAA
GGAACTCAGTTTAGTCCCAGACTTAGTACTTCCTTCGAAGTTCAAGATGCCAGAACTTGAAAGAT
ATAATG
Found at i:38705626 original size:24 final size:24
Alignment explanation
Indices: 38705598--38705671 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
38705588 TTCATTTTCA
* *
38705598 AAAAAAAAAAGAAAAAAAGGAAAG
1 AAAAAAAAAAGAGAAAAAGAAAAG
38705622 -AAAAAAAAAG-GAAAAAGAAAAG
1 AAAAAAAAAAGAGAAAAAGAAAAG
*
38705644 AAAAACAAAAA-AGAGAAAGAAAAG
1 AAAAA-AAAAAGAGAAAAAGAAAAG
38705668 AAAA
1 AAAA
38705672 GCAAAGGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.23
23 14 0.32
24 20 0.45
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAGAGAAAAAGAAAAG
Found at i:38705657 original size:35 final size:35
Alignment explanation
Indices: 38705598--38705671 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
38705588 TTCATTTTCA
*
38705598 AAAAAAAAAAGAAAAAAAGGAAAGA-AAAAAAAAGG
1 AAAAAAAAAAGAAAAAAAGAAAAGAGAAAAAAAA-G
* *
38705633 AAAAAGAAAAGAAAAACAA-AAAAGAGAAAGAAAAG
1 AAAAAAAAAAGAAAAA-AAGAAAAGAGAAAAAAAAG
38705668 AAAA
1 AAAA
38705672 GCAAAGGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 25 0.74
36 9 0.26
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (35 bp):
AAAAAAAAAAGAAAAAAAGAAAAGAGAAAAAAAAG
Found at i:38705667 original size:5 final size:5
Alignment explanation
Indices: 38705599--38705677 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
38705589 TCATTTTCAA
* * *
38705599 AAAAA AAAAG -AAA- AAAAG GAAAG AAAAA AAAAGG AAAAAG AAAAG AAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G -AAAAG AAAAG AAAAG
* *
38705648 ACAA- AAAAG AGAAAG AAAAG AAAAG CAAAG
1 AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG
38705678 GAGAGGCCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 12 0.20
5 38 0.63
6 6 0.10
7 4 0.07
ACGTcount: A:0.80, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:38705682 original size:24 final size:24
Alignment explanation
Indices: 38705613--38705682 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
38705603 AAAAAGAAAA
* *
38705613 AAAGGAAAGAAAAAAAAAGGA-A-
1 AAAGAAAAGAAAAACAAAGGAGAG
**
38705635 AAAGAAAAGAAAAACAAAAAAGAG
1 AAAGAAAAGAAAAACAAAGGAGAG
*
38705659 AAAGAAAAGAAAAGCAAAGGAGAG
1 AAAGAAAAGAAAAACAAAGGAGAG
38705683 GCCAAGGCGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.44
23 1 0.03
24 21 0.54
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (24 bp):
AAAGAAAAGAAAAACAAAGGAGAG
Found at i:38707237 original size:177 final size:177
Alignment explanation
Indices: 38706929--38707369 Score: 740
Period size: 177 Copynumber: 2.5 Consensus size: 177
38706919 CAGATTTCGG
*
38706929 CAAGCCTTATTCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCTACTGGCAG
1 CAAGCCTTATT-CACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
*
38706994 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGATCAGGAGCGGAGCAGATCAAATT
65 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
*
38707059 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCGA
130 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * * *
38707107 CCAGCCTTCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGTAGATCTCATCCCACTGGCTG
1 CAAGCCTTATTCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* *
38707171 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGTAGATTAAATT
65 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
38707236 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
130 TTGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* *
38707284 CAAGCCTTATCCCACTAAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
1 CAAGCCTTAT-TCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
*
38707349 GAGTGGAACAGATCAAATTTC
65 GAGTGGAATAGATCAAATTTC
38707370 AGCGGATCTT
Statistics
Matches: 244, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
176 3 0.01
177 163 0.67
178 75 0.31
179 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (177 bp):
CAAGCCTTATTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGG
AGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
TGGCGAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
Found at i:38707386 original size:132 final size:133
Alignment explanation
Indices: 38707243--38707719 Score: 583
Period size: 132 Copynumber: 3.6 Consensus size: 133
38707233 ATTTTGGCGA
* * *
38707243 ATCTTACCTCCATGTATCGGCAATGGAGCAGATTTC-AGCCACAAGCCTTATCCCACTAAGCAGG
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAAACCACCAGCCTTATCCCACTAAGCAGG
38707307 AGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAG
66 AGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAG
38707372 CGG
131 CGG
* * * * *
38707375 ATCTTGTCTCCATGTATCGGCAATGGATCAGATTTC-AGCCACCAGCCTTATCTTCACTGAGCAG
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAAACCACCAGCCTTATC-CCACTAAGCAG
* * * * * *
38707439 GAGTGGAGCAGGCTAAA-CT--CTAGATCTTATCTTCGCTGAGCAGGAGTGGATCAGATCAAATT
65 GAGTGGAACAGGCTAAATATAGC-AGATCTCATC-CCACTG-GCAGGAGTGGAACAGATCAAATT
* * *
38707501 TTAACGA
127 TCAGCGG
* * *
38707508 ATCTTATCTCCATGTATCAGCAATGGAGCAGA-TTCAAACCACCAGCATTATCCCACTGAGCAGG
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAAACCACCAGCCTTATCCCACTAAGCAGG
* * * *
38707572 AGTGTAATAGGCTAAATATAGCAGATCTCATCCCACTAGCAGGAGTGGAACATATCAAATTTCAG
66 AGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAG
38707637 CGG
131 CGG
* * * * * *
38707640 ATCTTATCTCCATGTATCGGTAATGGAGCA-AATTCAAACCACCAGTCTTAACCCCCTAAGCAGT
1 ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAAACCACCAGCCTTATCCCACTAAGCAGG
38707704 AG-GGTAACAGGCTAAA
66 AGTGG-AACAGGCTAAA
38707720 AACTACAGAT
Statistics
Matches: 291, Mismatches: 44, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
130 1 0.00
131 11 0.04
132 171 0.59
133 98 0.34
134 9 0.03
135 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (133 bp):
ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAAACCACCAGCCTTATCCCACTAAGCAGG
AGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAG
CGG
Found at i:38707684 original size:265 final size:265
Alignment explanation
Indices: 38707195--38707689 Score: 762
Period size: 265 Copynumber: 1.9 Consensus size: 265
38707185 AAATTTCGAC
* **
38707195 AGATCTTATCTTCGCTGAGCAGGAGCGGAGTAGATTAAATTTTGGCGAATCTTACCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGTAGATCAAATTTTAACGAATCTTACCTCCATGTAT
* * *
38707260 CGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCCCACTAAGCAGGAGTGGAACAGGCTAAATA
66 CAGCAATGGAGCAGATTTCAACCACAAGCATTATCCCACTAAGCAGGAGTGGAACAGGCTAAATA
* *
38707325 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTGTCTCCATGT
131 TAGCAGATCTCATCCCACTAGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGT
* * *
38707390 ATCGGCAATGGATCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
196 ATCGGCAATGGAGCAGAATTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
38707455 ACTCT
261 ACTCT
* *
38707460 AGATCTTATCTTCGCTGAGCAGGAGTGGA-TCAGATCAAATTTTAACGAATCTTATCTCCATGTA
1 AGATCTTATCTTCGCTGAGCAGGAGCGGAGT-AGATCAAATTTTAACGAATCTTACCTCCATGTA
* * * *
38707524 TCAGCAATGGAGCAGA-TTCAAACCACCAGCATTATCCCACTGAGCAGGAGTGTAATAGGCTAAA
65 TCAGCAATGGAGCAGATTTC-AACCACAAGCATTATCCCACTAAGCAGGAGTGGAACAGGCTAAA
*
38707588 TATAGCAGATCTCATCCCACTAGCAGGAGTGGAACATATCAAATTTCAGCGGATCTTATCTCCAT
129 TATAGCAGATCTCATCCCACTAGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCAT
* *
38707653 GTATCGGTAATGGAGCA-AATTCAAACCACCAGTCTTA
194 GTATCGGCAATGGAGCAGAATTC-AACCACCAGCCTTA
38707690 ACCCCCTAAG
Statistics
Matches: 207, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
264 8 0.04
265 199 0.96
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCGCTGAGCAGGAGCGGAGTAGATCAAATTTTAACGAATCTTACCTCCATGTAT
CAGCAATGGAGCAGATTTCAACCACAAGCATTATCCCACTAAGCAGGAGTGGAACAGGCTAAATA
TAGCAGATCTCATCCCACTAGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGT
ATCGGCAATGGAGCAGAATTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
ACTCT
Found at i:38707761 original size:265 final size:265
Alignment explanation
Indices: 38707195--38707763 Score: 702
Period size: 265 Copynumber: 2.1 Consensus size: 265
38707185 AAATTTCGAC
* * * * * * **
38707195 AGATCTTATCTTCGCTGAGCAGGAGCGGAGTAGATTAAATTTTGGCGAATCTTACCTCCATGTAT
1 AGATATTATCTTCACTAAGCAGGAGTGGAGCAGATCAAATTTTAACGAATCTTACCTCCATGTAT
* * *
38707260 CGGCAATGGAGCAGATTTCAGCCACAAGCCTTATCCCACTAAGCAGGAGTGGAACAGGCTAAATA
66 CAGCAATGGAGCAGATTTCAACCACAAGCATTATCCCACTAAGCAGGAGTGGAACAGGCTAAATA
* *
38707325 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTGTCTCCATGT
131 TAGCAGATCTCATCCCACTAGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGT
* * * * * * *
38707390 ATCGGCAATGGATCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
196 ATCGGCAATGGAGCAGAATTCAACCACCAGCCTTAACTCCACTAAGCAGGAGTGGAACAGGCTAA
38707455 ACTCT
261 ACTCT
* * * * *
38707460 AGATCTTATCTTCGCTGAGCAGGAGTGGATCAGATCAAATTTTAACGAATCTTATCTCCATGTAT
1 AGATATTATCTTCACTAAGCAGGAGTGGAGCAGATCAAATTTTAACGAATCTTACCTCCATGTAT
* * * *
38707525 CAGCAATGGAGCAGA-TTCAAACCACCAGCATTATCCCACTGAGCAGGAGTGTAATAGGCTAAAT
66 CAGCAATGGAGCAGATTTC-AACCACAAGCATTATCCCACTAAGCAGGAGTGGAACAGGCTAAAT
*
38707589 ATAGCAGATCTCATCCCACTAGCAGGAGTGGAACATATCAAATTTCAGCGGATCTTATCTCCATG
130 ATAGCAGATCTCATCCCACTAGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATG
* * * *
38707654 TATCGGTAATGGAGCA-AATTCAAACCACCAGTCTTAAC-CCCCTAAGCAGTAG-GGTAACAGGC
195 TATCGGCAATGGAGCAGAATTC-AACCACCAGCCTTAACTCCACTAAGCAGGAGTGG-AACAGGC
38707716 TAAAAACTAC-
258 T--AAACT-CT
* *
38707726 AGATATTGTC-TCATTAAGC-GGTAGTGGAGCAGATCAAA
1 AGATATTATCTTCACTAAGCAGG-AGTGGAGCAGATCAAA
38707764 GATACACGCT
Statistics
Matches: 263, Mismatches: 34, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
263 2 0.01
264 26 0.10
265 221 0.84
266 13 0.05
267 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (265 bp):
AGATATTATCTTCACTAAGCAGGAGTGGAGCAGATCAAATTTTAACGAATCTTACCTCCATGTAT
CAGCAATGGAGCAGATTTCAACCACAAGCATTATCCCACTAAGCAGGAGTGGAACAGGCTAAATA
TAGCAGATCTCATCCCACTAGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGT
ATCGGCAATGGAGCAGAATTCAACCACCAGCCTTAACTCCACTAAGCAGGAGTGGAACAGGCTAA
ACTCT
Found at i:38707904 original size:87 final size:85
Alignment explanation
Indices: 38707686--38708247 Score: 522
Period size: 87 Copynumber: 6.6 Consensus size: 85
38707676 AACCACCAGT
** * * **** * *
38707686 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAACTACAGATATTGTCTCATTAAGCGGTAGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGCTCGCCGAGCAGTGGT
38707751 GGAGCAGATCAAAGATACACGC
66 GGAGCAGATCAAAG--ACACGC
* * * * * * * ** * * * *
38707773 TTTAACTCCCTAAGCAATAGAGTAACAAGCTGAAGA-TTATAGATCTTATCTC-CCTAAGTAATA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCTTGGCTCGCC-GAGCAGTG
38707836 GTGGAGCAGATCAAAGATACACGC
64 GTGGAGCAGATCAAAG--ACACGC
* * * *
38707860 CTTCACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGCTCGCCGAGCAGTGGT
* *
38707925 AGAGCAGATCAAAGATAGACGC
66 GGAGCAGATCAAAG--ACACGC
* ** *
38707947 CTTAACCCCTTAAATAGTAGGGTAACAGGCTAAAATTTACAGATC-TGGACTCACCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGG-CTCGCCGAGCAGTGG
* * * ** *
38708011 CGGAGTAGGTTGAAGACTCGC
65 TGGAGCAGATCAAAGACACGC
* * *
38708032 TTTAACCCCGTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTT-GGCTCGCCGAGCAGTGG
* *
38708096 TGGAGCAGGTCAAAGACTCGC
65 TGGAGCAGATCAAAGACACGC
* * *
38708117 CTTAGCCCCCTAAGCAGTAGGGTAACATGCTAAAATTTACAGATCTTGGCTCTCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGCTCGCCGAGCAGTGGT
* * **
38708182 GGAGTAGGTCAAAGACTTGC
66 GGAGCAGATCAAAGACACGC
* *
38708202 CTTAACCCCCTAAGTAGTAGGGTAATAGGCTAAAA-TTACAGATCTT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTT
38708248 ATTTTCGTTA
Statistics
Matches: 399, Mismatches: 68, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
84 12 0.03
85 178 0.45
86 10 0.03
87 194 0.49
88 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (85 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGCTCGCCGAGCAGTGGT
GGAGCAGATCAAAGACACGC
Found at i:38708089 original size:85 final size:85
Alignment explanation
Indices: 38707838--38708246 Score: 509
Period size: 85 Copynumber: 4.8 Consensus size: 85
38707828 AAGTAATAGT
* * *
38707838 GGAGCAGATCAAAGATACACGCCTTCACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGA
1 GGAGCAGGTCAAAG--ACTCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGA
38707903 TCTGGGCTCGCCGAGCAGTGGC
64 TCTGGGCTCGCCGAGCAGTGGC
* * * *
38707925 AGAGCAGATCAAAGA-TAGACGCCTTAACCCCTTAAATAGTAGGGTAACAGGCTAAAATTTACAG
1 GGAGCAGGTCAAAGACT---CGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAG
* *
38707989 ATCTGGACTCACCGAGCAGTGGC
63 ATCTGGGCTCGCCGAGCAGTGGC
* ** * * * *
38708012 GGAGTAGGTTGAAGACTCGCTTTAACCCCGTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-C
1 GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATC
*
38708076 TTGGGCTCGCCGAGCAGTGGT
66 -TGGGCTCGCCGAGCAGTGGC
* * *
38708097 GGAGCAGGTCAAAGACTCGCCTTAGCCCCCTAAGCAGTAGGGTAACATGCTAAAATTTACAGATC
1 GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATC
* * *
38708162 TTGGCTCTCCGAGCAGTGGT
66 TGGGCTCGCCGAGCAGTGGC
* * *
38708182 GGAGTAGGTCAAAGACTTGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTAAAA-TTACAGATC
1 GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATC
38708246 T
66 T
38708247 TATTTTCGTT
Statistics
Matches: 280, Mismatches: 36, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
84 11 0.04
85 181 0.65
86 1 0.00
87 86 0.31
88 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (85 bp):
GGAGCAGGTCAAAGACTCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATC
TGGGCTCGCCGAGCAGTGGC
Found at i:38708517 original size:29 final size:29
Alignment explanation
Indices: 38708484--38708547 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
38708474 CCAAATTAAA
*
38708484 CACCCCACTAAACCGA-CCTCTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
38708513 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
38708542 CACCCC
1 CACCCC
38708548 CACACCCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.30, C:0.52, G:0.02, T:0.17
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:38708560 original size:37 final size:37
Alignment explanation
Indices: 38708513--38708624 Score: 215
Period size: 37 Copynumber: 3.0 Consensus size: 37
38708503 CTAACTCCAT
38708513 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
38708550 CACCCTACTAAACCATCCACTACCTTCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
38708587 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
38708624 C
1 C
38708625 TAACTCAATC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:38708626 original size:18 final size:18
Alignment explanation
Indices: 38708529--38708638 Score: 57
Period size: 18 Copynumber: 6.0 Consensus size: 18
38708519 ACTAAACCAT
38708529 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
38708547 CCAC-ACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
*
38708566 CCACTACCTTCATCACCC
1 CCACTACCTCCATCACCC
* * *
38708584 CCAC-ACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
38708603 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* *
38708621 CCACTAACTCAATCACCC
1 CCACTACCTCCATCACCC
38708639 TACTTGTTAT
Statistics
Matches: 66, Mismatches: 16, Indels: 20
0.65 0.16 0.20
Matches are distributed among these distances:
16 3 0.05
17 8 0.12
18 30 0.45
19 14 0.21
20 8 0.12
21 3 0.05
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:38709038 original size:63 final size:62
Alignment explanation
Indices: 38708911--38709048 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 62
38708901 TAACTCCTTT
* * *
38708911 TTTA-TTTTTGTTATTTTACTGTTAAATTAATTAATTTGATCTTTATTCTCATTATTTTTATA
1 TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGA-CGTTATTCTCATTATTTTTATA
* * * *
38708973 TTTGTTTTTTATTATTTT-CTATTAATTTAATTAATTTGA-GTTATGTTTCA-TATTATTATA
1 TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGACGTTAT-TCTCATTATTTTTATA
38709033 -TTATTTATTTATTATT
1 TTTATTT-TTTATTATT
38709049 ATATATTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
59 5 0.08
60 22 0.34
61 4 0.06
62 22 0.34
63 12 0.18
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (62 bp):
TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGACGTTATTCTCATTATTTTTATA
Found at i:38709047 original size:19 final size:18
Alignment explanation
Indices: 38709023--38709059 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
38709013 TTATGTTTCA
38709023 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
38709042 TATTATTATATATTTATT
1 TATTATTATATATTTATT
38709060 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:38709049 original size:63 final size:61
Alignment explanation
Indices: 38708911--38709050 Score: 142
Period size: 62 Copynumber: 2.2 Consensus size: 61
38708901 TAACTCCTTT
* * *
38708911 TTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGATCTTTATTCTCATTATTTTTATA
1 TTTATTTTTATTATTTTACTATTAAATTAATTAATTTGA-CGTTATTCTCATTATTTTTATA
* * *
38708973 TTTGTTTTTTATTATTTT-CTATTAATTTAATTAATTTGA-GTTATGTTTCA-TATTATTATATT
1 TTT-ATTTTTATTATTTTACTATTAAATTAATTAATTTGACGTTAT-TCTCATTATT-TT-TA-T
38709035 A
61 A
38709036 TTTATTTATTATTAT
1 TTTATTT-TTATTAT
38709051 ATATTTATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
60 8 0.12
61 6 0.09
62 27 0.42
63 24 0.37
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (61 bp):
TTTATTTTTATTATTTTACTATTAAATTAATTAATTTGACGTTATTCTCATTATTTTTATA
Found at i:38709061 original size:21 final size:21
Alignment explanation
Indices: 38709023--38709078 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
38709013 TTATGTTTCA
38709023 TATTATTATATTATTTA-T-T-
1 TATTATTATA-TATTTATTATG
38709042 TATTATTATATATTTATTATG
1 TATTATTATATATTTATTATG
*
38709063 TA-AATATATATATTTA
1 TATTAT-TATATATTTA
38709079 AGCGAAGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 3 0.09
21 12 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTATTATATATTTATTATG
Found at i:38709071 original size:17 final size:14
Alignment explanation
Indices: 38709031--38709061 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38709021 CATATTATTA
*
38709031 TATTATTTATTTAT
1 TATTATATATTTAT
38709045 TATTATATATTTAT
1 TATTATATATTTAT
38709059 TAT
1 TAT
38709062 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Done.