Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 362 of 425
Found at i:111783921 original size:2 final size:2
Alignment explanation
Indices: 111783914--111783946 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
111783904 ATATTTATTC
*
111783914 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111783947 TGATATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:111784387 original size:28 final size:28
Alignment explanation
Indices: 111784334--111784387 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
111784324 TCATTATAGA
* *
111784334 TATAAATTCTTTTACAAACTTTATATTC
1 TATAAATTATTTTACAAACTTAATATTC
*
111784362 TATACATTATTTTACTAAAC-TAATAT
1 TATAAATTATTTTAC-AAACTTAATAT
111784388 CTTTTGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.82
29 4 0.18
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAAATTATTTTACAAACTTAATATTC
Found at i:111794598 original size:16 final size:16
Alignment explanation
Indices: 111794577--111794614 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
111794567 TTCACCTTTA
111794577 CATGTCATTACTTCTC
1 CATGTCATTACTTCTC
111794593 CATGTCATTACTTCTC
1 CATGTCATTACTTCTC
111794609 CATGTC
1 CATGTC
111794615 CTTTCTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.08, T:0.42
Consensus pattern (16 bp):
CATGTCATTACTTCTC
Found at i:111796541 original size:119 final size:119
Alignment explanation
Indices: 111796376--111796854 Score: 771
Period size: 119 Copynumber: 4.0 Consensus size: 119
111796366 TAGGCCGCAG
*
111796376 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
1 TATAGCAGATCTAAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
111796440 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
*
111796495 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
111796560 TTTACAAGAAACAAATCGAGGACATAGCAAATTTGACTCTTAGACGTTCTCAGA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* *
111796614 TATAGCAAATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
111796679 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA-A-A
* * * **
111796735 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGT
*
111796800 GTTTACAAGAAACAAATCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCAAA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
111796855 CAGACTCCAA
Statistics
Matches: 331, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
119 219 0.66
120 3 0.01
121 34 0.10
122 75 0.23
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
Found at i:111797003 original size:83 final size:84
Alignment explanation
Indices: 111796772--111797005 Score: 375
Period size: 84 Copynumber: 2.8 Consensus size: 84
111796762 ATACTGAAGC
111796772 CAGA-TCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGTAGATTTG
1 CAGACTCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGTAGATTTG
111796836 ACTCTCAGATGTTCTCAAA
66 ACTCTCAGATGTTCTCAAA
111796855 CAGACTCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGTAGATTTG
1 CAGACTCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGTAGATTTG
111796920 ACTCTCAGATGTTCTCAAA
66 ACTCTCAGATGTTCTCAAA
* * * * * * *
111796939 CAGACTCC-AGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCT-GATTT
1 CAGACTCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGGACATAG-TAGATTT
111797002 GACT
65 GACT
111797006 TTCACGTGTT
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
83 54 0.38
84 88 0.62
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (84 bp):
CAGACTCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGTAGATTTG
ACTCTCAGATGTTCTCAAA
Found at i:111802327 original size:2 final size:2
Alignment explanation
Indices: 111802320--111802369 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
111802310 GGTAACGTTA
111802320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
111802362 AT TT AT AT
1 AT AT AT AT
111802370 TTTTTTAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:111804791 original size:25 final size:26
Alignment explanation
Indices: 111804754--111804805 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
111804744 TTTGATAAAT
111804754 TATAATAATAAT-AATTTATGTTTTTA
1 TATAATAATAATAAATTTAT-TTTTTA
*
111804780 TATAATTA-AATAAATTTATTTTTTA
1 TATAATAATAATAAATTTATTTTTTA
111804805 T
1 T
111804806 CAAGAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TATAATAATAATAAATTTATTTTTTA
Found at i:111805237 original size:13 final size:13
Alignment explanation
Indices: 111805221--111805245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111805211 TTTAATGATG
111805221 ATTATTAAAAATA
1 ATTATTAAAAATA
111805234 ATTATTAAAAAT
1 ATTATTAAAAAT
111805246 TATATTTTCT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATTAAAAATA
Found at i:111810703 original size:45 final size:45
Alignment explanation
Indices: 111810649--111810959 Score: 300
Period size: 45 Copynumber: 7.5 Consensus size: 45
111810639 AAGAGGAAGT
** * *
111810649 GCAGCCCGAGACCTTAACAGACAAGGAAGAGCAAGAGAAGGCGCA
1 GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
111810694 GCAGCCCGAGAGTTTACCAGACAAGGAAG-G---GA-AA---G-A
1 GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
* * *
111810730 TGC-GCCCAAGAGTTTACCGGACAAGGAAGAGAAAGAGGAGGCGCA
1 -GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
*
111810775 GCAGCCCGAGAGTTTACCAGACAAGGAAGAG-AA-AG-A-----T
1 GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
* *
111810812 GC-GCCCAAGAGTTTACCAGACAAGGAAGAGAAAGAGGAGGCGCA
1 GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
111810856 GCAGCCCGAGAGTTTACCAGACAAGGAAGAG-AA-AG-A-----A
1 GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
* * *
111810893 GC-GCCCAAGAGTTTACCAGACAAGGAAGAGAACGAGGAGGCGCA
1 GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
111810937 GCAGCCCGAGAGTTTACCAGACA
1 GCAGCCCGAGAGTTTACCAGACA
111810960 GGGCTGCAAA
Statistics
Matches: 222, Mismatches: 15, Indels: 58
0.75 0.05 0.20
Matches are distributed among these distances:
36 79 0.36
37 12 0.05
38 4 0.02
39 2 0.01
40 4 0.02
41 3 0.01
42 2 0.01
43 4 0.02
44 13 0.06
45 99 0.45
ACGTcount: A:0.38, C:0.22, G:0.32, T:0.08
Consensus pattern (45 bp):
GCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAGAAGGCGCA
Found at i:111810742 original size:36 final size:36
Alignment explanation
Indices: 111810697--111810920 Score: 196
Period size: 36 Copynumber: 5.7 Consensus size: 36
111810687 AGGCGCAGCA
* *
111810697 GCCCGAGAGTTTACCAGACAAGGAAGGGAAAGATGC
1 GCCCAAGAGTTTACCAGACAAGGAAGGGAAAGAAGC
* *
111810733 GCCCAAGAGTTTACCGGACAAGGAAGAGAAAGAGGAGGCGCAGC
1 GCCCAAGAGTTTACCAGACAAGGAAG-GGAA-A-GA-----AGC
* * *
111810777 AGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGATGC
1 -GCCCAAGAGTTTACCAGACAAGGAAGGGAAAGAAGC
*
111810814 GCCCAAGAGTTTACCAGACAAGGAAGAGAAAGAGGAGGCGCAGC
1 GCCCAAGAGTTTACCAGACAAGGAAG-GGAA-A-GA-----AGC
* *
111810858 AGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAAGC
1 -GCCCAAGAGTTTACCAGACAAGGAAGGGAAAGAAGC
111810895 GCCCAAGAGTTTACCAGACAAGGAAG
1 GCCCAAGAGTTTACCAGACAAGGAAG
111810921 AGAACGAGGA
Statistics
Matches: 153, Mismatches: 17, Indels: 36
0.74 0.08 0.17
Matches are distributed among these distances:
36 74 0.48
37 10 0.07
38 2 0.01
39 4 0.03
42 4 0.03
43 2 0.01
44 8 0.05
45 49 0.32
ACGTcount: A:0.39, C:0.20, G:0.32, T:0.09
Consensus pattern (36 bp):
GCCCAAGAGTTTACCAGACAAGGAAGGGAAAGAAGC
Found at i:111810755 original size:81 final size:81
Alignment explanation
Indices: 111810666--111810959 Score: 534
Period size: 81 Copynumber: 3.6 Consensus size: 81
111810656 GAGACCTTAA
* * *
111810666 CAGACAAGGAAGAGCAAGAGAAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGGGAAAGAT
1 CAGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAT
111810731 GCGCCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
*
111810747 CGGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAT
1 CAGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAT
111810812 GCGCCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
*
111810828 CAGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAA
1 CAGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAT
111810893 GCGCCCAAGAGTTTAC
66 GCGCCCAAGAGTTTAC
*
111810909 CAGACAAGGAAGAGAACGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACA
1 CAGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACA
111810960 GGGCTGCAAA
Statistics
Matches: 206, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 206 1.00
ACGTcount: A:0.39, C:0.21, G:0.33, T:0.08
Consensus pattern (81 bp):
CAGACAAGGAAGAGAAAGAGGAGGCGCAGCAGCCCGAGAGTTTACCAGACAAGGAAGAGAAAGAT
GCGCCCAAGAGTTTAC
Found at i:111813722 original size:2 final size:2
Alignment explanation
Indices: 111813715--111813757 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
111813705 CTCATATGTT
*
111813715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111813757 T
1 T
111813758 CATTGCTAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:111814072 original size:21 final size:21
Alignment explanation
Indices: 111814048--111814096 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
111814038 GCATAATTTA
111814048 TATTCATTTTGGCTATTTGCC
1 TATTCATTTTGGCTATTTGCC
111814069 TATTCATTTTGGCTATTTGCC
1 TATTCATTTTGGCTATTTGCC
111814090 TATTCAT
1 TATTCAT
111814097 AAACGTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.53
Consensus pattern (21 bp):
TATTCATTTTGGCTATTTGCC
Found at i:111814493 original size:40 final size:39
Alignment explanation
Indices: 111814407--111814523 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 39
111814397 TTAAGTTACC
** * * *
111814407 ATAGTGAATCAGGACCAAATTCTATCCACTTTATATATTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTA-ATTTTT
*
111814447 ACAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTT-TT
*
111814487 TTAGTGAATCAGGAATAAATCCTATTCACTCTTAATT
1 ATAGTGAATCAGGAATAAATCCTATTCACT-TTAATT
111814524 CTCGAGAAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 58 0.87
41 6 0.09
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (39 bp):
ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTTT
Found at i:111815655 original size:3 final size:3
Alignment explanation
Indices: 111815647--111815689 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
111815637 TTATTTTATT
111815647 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
111815690 CTAGTAATAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:111816035 original size:8 final size:8
Alignment explanation
Indices: 111816022--111816051 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
111816012 TACTTAGTGT
111816022 TTATTTTA
1 TTATTTTA
111816030 TTATTTTA
1 TTATTTTA
111816038 TTATTTTA
1 TTATTTTA
111816046 TTATTT
1 TTATTT
111816052 CTTTGTGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTA
Found at i:111816834 original size:21 final size:20
Alignment explanation
Indices: 111816814--111816856 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
111816804 ATATAGGGGA
111816814 ACACGCCCGTGTGGCCTGGG
1 ACACGCCCGTGTGGCCTGGG
* * *
111816834 ACATGTCCGTGTGGCCTAGG
1 ACACGCCCGTGTGGCCTGGG
111816854 ACA
1 ACA
111816857 TGGCTGTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCCTGGG
Found at i:111816845 original size:20 final size:20
Alignment explanation
Indices: 111816820--111816858 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
111816810 GGGAACACGC
*
111816820 CCGTGTGGCCTGGGACATGT
1 CCGTGTGGCCTAGGACATGT
111816840 CCGTGTGGCCTAGGACATG
1 CCGTGTGGCCTAGGACATG
111816859 GCTGTGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.26, G:0.38, T:0.23
Consensus pattern (20 bp):
CCGTGTGGCCTAGGACATGT
Found at i:111818797 original size:19 final size:18
Alignment explanation
Indices: 111818764--111818807 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
111818754 ATTGTCTCTT
* *
111818764 TTTCTTTTTCTTTTCTCC
1 TTTCTTTCTCTTTTCACC
*
111818782 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACC
111818801 TTTCTTT
1 TTTCTTT
111818808 TTCTGTAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACC
Found at i:111823891 original size:30 final size:30
Alignment explanation
Indices: 111823855--111823914 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
111823845 ATTTAATACT
* * *
111823855 AACTTTTTAAAAATTACATTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTCGCCCCTA
* *
111823885 AACTTTTGCATAATTACACTTTCGCCCCTA
1 AACTTTTGAAAAATTACACTTTCGCCCCTA
111823915 GGATCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTCGCCCCTA
Found at i:111827130 original size:20 final size:20
Alignment explanation
Indices: 111827102--111827148 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
111827092 AGGGGCACAC
* *
111827102 GCCCATGTGGCTTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
111827122 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
111827142 GGCCGTG
1 GCCCGTG
111827149 GGACTAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.28, G:0.40, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:111828106 original size:37 final size:39
Alignment explanation
Indices: 111828012--111828108 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 39
111828002 CACACCAGAA
*
111828012 TGGCGACCAACGCCTCATCGGATAGTTCGAAGCAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGCTCGAAGC-AATAAG
** * *
111828052 TGATGACCAACGTCTCATCGGCTAAGCT-GAAGC-A-AAG
1 TGGCGACCAACGCCTCATCGGAT-AGCTCGAAGCAATAAG
*
111828089 TGGCGACCAATGCCTCATCG
1 TGGCGACCAACGCCTCATCG
111828109 AATCTATCCG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 19 0.40
38 1 0.02
40 24 0.51
41 3 0.06
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.19
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGCTCGAAGCAATAAG
Found at i:111835811 original size:14 final size:15
Alignment explanation
Indices: 111835787--111835815 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
111835777 CATTCTTCCT
111835787 TTTTCTTTTTTCTTC
1 TTTTCTTTTTTCTTC
111835802 TTTT-TTTTTTCTTC
1 TTTTCTTTTTTCTTC
111835816 ATCAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:111836621 original size:8 final size:8
Alignment explanation
Indices: 111836608--111836639 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
111836598 CTAGATCGGC
111836608 AAAAGCCG
1 AAAAGCCG
111836616 AAAAGCCG
1 AAAAGCCG
*
111836624 AAATGCCG
1 AAAAGCCG
111836632 AAAAGCCG
1 AAAAGCCG
111836640 GTATTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:111837092 original size:27 final size:26
Alignment explanation
Indices: 111837052--111837154 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 26
111837042 AGGAAGCGTC
*
111837052 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
111837079 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
111837106 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
111837134 CTGGTGACTCTGTCACATTAT
1 CTGGTGGCTCTGCCACATTAT
111837155 TTGTTCTCGC
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:111837160 original size:54 final size:54
Alignment explanation
Indices: 111837052--111837161 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
111837042 AGGAAGCGTC
*
111837052 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
111837106 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATTTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
111837160 CT
1 CT
111837162 CGCAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:111844942 original size:27 final size:26
Alignment explanation
Indices: 111844902--111844987 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
111844892 AGGAAGCGTC
* *
111844902 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGCGGCTCTGCCAC-ATTATCTGAT
111844929 CTGGCGGCTCTGCCACGATTATCTGTAT
1 CTGGCGGCTCTGCCAC-ATTATCTG-AT
* * ** *
111844957 CTGGTGACTCTTTCACATTATCTGTT
1 CTGGCGGCTCTGCCACATTATCTGAT
111844983 CTGGC
1 CTGGC
111844988 AGCCATGCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.10
27 30 0.61
28 14 0.29
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGCGGCTCTGCCACATTATCTGAT
Found at i:111846216 original size:27 final size:26
Alignment explanation
Indices: 111846168--111846299 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 26
111846158 GCAAGGCTTC
* *
111846168 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
111846194 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
111846221 CAGATAATTGTGGCATAGCCACCAGGAT
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
111846249 -AGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
111846275 CAAATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
111846300 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.11
27 76 0.84
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:111846260 original size:54 final size:53
Alignment explanation
Indices: 111846196--111846301 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 53
111846186 CACCAGATAC
*
111846196 AGATATTGTGGCAGAGCCACCAGAACAGATAATTGTGGCATAGCCACCAGGAT
1 AGATATTGTGGCAGAGCCACCAGAACAAATAATTGTGGCATAGCCACCAGGAT
*
111846249 AGATATATGTGGCAGAGCCACCAGATCAAATAATTGTGGCATAGCCACCAGGA
1 AGATAT-TGTGGCAGAGCCACCAGAACAAATAATTGTGGCATAGCCACCAGGA
111846302 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 6 0.12
54 44 0.88
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (53 bp):
AGATATTGTGGCAGAGCCACCAGAACAAATAATTGTGGCATAGCCACCAGGAT
Found at i:111849309 original size:27 final size:27
Alignment explanation
Indices: 111849262--111849419 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
111849252 CGAGGCTGCT
* *
111849262 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
111849289 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
111849315 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* *
111849342 AGATAATTGTGGCATAGCCACCAG-GAC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
111849369 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* * *
111849396 AAATAATTGTAGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
111849420 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:111849420 original size:54 final size:54
Alignment explanation
Indices: 111849279--111849422 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
111849269 GTGACGAAGT
* *
111849279 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
111849333 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
111849387 CACCAGATCAAATAATTGTAGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
111849423 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:111849832 original size:16 final size:16
Alignment explanation
Indices: 111849811--111849852 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
111849801 CAAAATACCA
*
111849811 GCTTTTCGGTATTTCG
1 GCTTTTCGGCATTTCG
111849827 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
111849843 GCTTTTCGGC
1 GCTTTTCGGC
111849853 TTGTGCTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.26, T:0.45
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:111849853 original size:8 final size:8
Alignment explanation
Indices: 111849811--111849854 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
111849801 CAAAATACCA
111849811 GCTTTTCG
1 GCTTTTCG
111849819 G-TATTTCG
1 GCT-TTTCG
111849827 GCTTTTCG
1 GCTTTTCG
*
111849835 GCATTTCG
1 GCTTTTCG
111849843 GCTTTTCG
1 GCTTTTCG
111849851 GCTT
1 GCTT
111849855 GTGCTGATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.05, C:0.23, G:0.25, T:0.48
Consensus pattern (8 bp):
GCTTTTCG
Found at i:111862035 original size:21 final size:21
Alignment explanation
Indices: 111861988--111862035 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
111861978 AAGACAGAAG
* *
111861988 TGTCCCAAGGTCACACGGGCG
1 TGTCCCAAGATCACACGGGCA
* **
111862009 TCTCCCAAGATCACATTGGCA
1 TGTCCCAAGATCACACGGGCA
111862030 TGTCCC
1 TGTCCC
111862036 TTGGACCACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (21 bp):
TGTCCCAAGATCACACGGGCA
Found at i:111862274 original size:67 final size:67
Alignment explanation
Indices: 111862166--111862299 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
111862156 TATTTAAGGA
111862166 CATTTTGAATAATCTTGGTTAATGAATAGTAACTTGCATGATTTATTTGTAAATGTTCCTGTATG
1 CATTTTGAATAATCTTGGTTAATGAATAGTAACTTGCATGATTTATTTGTAAATGTTCCTGTATG
111862231 TT
66 TT
111862233 CATTTTGAATAATCTTGGTTAATGAATAGTAACTTGCATGATTTATTTGTAAATGTTCCTGTATG
1 CATTTTGAATAATCTTGGTTAATGAATAGTAACTTGCATGATTTATTTGTAAATGTTCCTGTATG
111862298 TT
66 TT
111862300 ACATGCAACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.46
Consensus pattern (67 bp):
CATTTTGAATAATCTTGGTTAATGAATAGTAACTTGCATGATTTATTTGTAAATGTTCCTGTATG
TT
Found at i:111864135 original size:15 final size:17
Alignment explanation
Indices: 111864115--111864147 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
111864105 TAGTAATATA
111864115 ATAATTT-T-TTATTTG
1 ATAATTTATGTTATTTG
111864130 ATAATTTATGTTATTTG
1 ATAATTTATGTTATTTG
111864147 A
1 A
111864148 ATGAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
ATAATTTATGTTATTTG
Found at i:111865260 original size:41 final size:40
Alignment explanation
Indices: 111865215--111865317 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
111865205 TTTCTGAATC
*
111865215 AATGAAAAAGTTGAAAAGGATGTTATCAGAAAACGATATCA
1 AATGAAAAAGTTGAAAAGGATATTATCAGAAAACGATAT-A
** * *
111865256 AATGAAAAAGTTGAAAAAAATATTATCTGAAAAGGATATA
1 AATGAAAAAGTTGAAAAGGATATTATCAGAAAACGATATA
* *
111865296 AATGAAAAGGTCGAAAAGGATA
1 AATGAAAAAGTTGAAAAGGATA
111865318 GCAATGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 19 0.36
41 34 0.64
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.21
Consensus pattern (40 bp):
AATGAAAAAGTTGAAAAGGATATTATCAGAAAACGATATA
Found at i:111866300 original size:31 final size:31
Alignment explanation
Indices: 111866263--111866436 Score: 235
Period size: 31 Copynumber: 5.6 Consensus size: 31
111866253 TGTGTACAAT
111866263 GTGAAAAGTGGTAGCTTCGACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGACTACCTGATCA
*
111866294 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGACTACCTGATCA
* *
111866325 ATGAAAAGCGGTAGCTTCGACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGACTACCTGATCA
* * *
111866356 GCGAAAAGTAGTAGCTTCGACTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGACTACCTGATCA
* *
111866387 GTGAAAAGTGGTAGC-TCCAGCTAACTGATCA
1 GTGAAAAGTGGTAGCTTCGA-CTACCTGATCA
*
111866418 GT-AAATAGTGATAGCTTCG
1 GTGAAA-AGTGGTAGCTTCG
111866437 GTTATCGAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
30 6 0.05
31 116 0.94
32 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGACTACCTGATCA
Found at i:111866460 original size:29 final size:29
Alignment explanation
Indices: 111866427--111866484 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
111866417 AGTAAATAGT
*
111866427 GATAGCTTCGGTTATCGAATGTGAAAAGG
1 GATAGCTTCGGCTATCGAATGTGAAAAGG
*
111866456 GATAGCTTTGGCTATCGAATGTGAAAAGG
1 GATAGCTTCGGCTATCGAATGTGAAAAGG
111866485 TTAGGTATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (29 bp):
GATAGCTTCGGCTATCGAATGTGAAAAGG
Found at i:111866637 original size:33 final size:32
Alignment explanation
Indices: 111866477--111866631 Score: 177
Period size: 32 Copynumber: 4.8 Consensus size: 32
111866467 CTATCGAATG
*
111866477 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTAGGTATACTTTGTGTATA-CACT
* * *
111866510 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTAGGTATACTTTGTGTATACACT
* * *
111866542 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTAGGTATACTTTGTGTATACACT
**
111866574 TGAAAAGGAAAGGTATACTTTGTGTATAC-CAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACAC-T
**
111866606 ATGAAAAGGAAAGGTATACTTTGTGT
1 -TGAAAAGGTTAGGTATACTTTGTGT
111866632 TTACCACTCA
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
31 1 0.01
32 60 0.54
33 50 0.45
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (32 bp):
TGAAAAGGTTAGGTATACTTTGTGTATACACT
Found at i:111866655 original size:97 final size:97
Alignment explanation
Indices: 111866477--111866685 Score: 215
Period size: 97 Copynumber: 2.1 Consensus size: 97
111866467 CTATCGAATG
** * ** *
111866477 TGAAAAGGTTAGGTATACTTTGTGTATATCACATGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTACACT
* ** * * * * *
111866542 TGAAAAGGTTATGTACACTTTGTGTGTACACT
66 AGAAAAGGAAACGTACACCTCGAGTGTACAAT
* * *
111866574 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTTTACCAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTA-CAC
111866639 TCAG-AAA-GAAACGTACACCTCGAGTGTACAAT
65 T-AGAAAAGGAAACGTACACCTCGAGTGTACAAT
*
111866671 TGGAAAAGAAAAGGT
1 T-GAAAAGGAAAGGT
111866686 CCATTAGAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
97 71 0.78
98 19 0.21
99 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (97 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAGGTACACTTTGTGTGTACACT
AGAAAAGGAAACGTACACCTCGAGTGTACAAT
Found at i:111874289 original size:23 final size:23
Alignment explanation
Indices: 111874244--111874289 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
111874234 AAATCCTAAT
* *
111874244 TTTCCTTTCTTTTTCTTTCTTTC
1 TTTCCCTTCTTTGTCTTTCTTTC
111874267 TTTCCCTTCTTTGT-TTTCGTTTC
1 TTTCCCTTCTTTGTCTTTC-TTTC
111874290 AACTTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTCCCTTCTTTGTCTTTCTTTC
Found at i:111874357 original size:16 final size:16
Alignment explanation
Indices: 111874336--111874366 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111874326 CTTTATGTTT
*
111874336 ATTATATTAATATAAC
1 ATTATATTAACATAAC
111874352 ATTATATTAACATAA
1 ATTATATTAACATAA
111874367 TAATTATTAT
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTATATTAACATAAC
Found at i:111876930 original size:49 final size:49
Alignment explanation
Indices: 111876858--111876953 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
111876848 GCCTAACTCT
111876858 TAAAAAAGAGAATTCATATAGGAAATTCTTTAAAGCACCAAAATAAAGC
1 TAAAAAAGAGAATTCATATAGGAAATTCTTTAAAGCACCAAAATAAAGC
*
111876907 TAAAAATGAGAATTCATATAGGAAATTCTTTAAAGCACCAAAATAAA
1 TAAAAAAGAGAATTCATATAGGAAATTCTTTAAAGCACCAAAATAAA
111876954 ACGAAAGCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.24
Consensus pattern (49 bp):
TAAAAAAGAGAATTCATATAGGAAATTCTTTAAAGCACCAAAATAAAGC
Found at i:111878356 original size:27 final size:27
Alignment explanation
Indices: 111878325--111878381 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
111878315 AAAAATATTT
111878325 CATAAAAGTTGTTTTCAATTAAACAAA
1 CATAAAAGTTGTTTTCAATTAAACAAA
111878352 CAT-AAAGTTGTTTTCAATTAAACAAA
1 CATAAAAGTTGTTTTCAATTAAACAAA
111878378 CATA
1 CATA
111878382 CATTTGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (27 bp):
CATAAAAGTTGTTTTCAATTAAACAAA
Found at i:111878742 original size:15 final size:15
Alignment explanation
Indices: 111878722--111878773 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
111878712 ACTATAAAAC
111878722 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
111878737 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
111878756 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
111878771 ATT
1 ATT
111878774 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:111878894 original size:22 final size:23
Alignment explanation
Indices: 111878861--111878904 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
111878851 TTGAAATATT
111878861 AAATAATTTATTAAAATAATAAA
1 AAATAATTTATTAAAATAATAAA
* *
111878884 AAAT-ATTTATTATATTAATAA
1 AAATAATTTATTAAAATAATAA
111878905 TTTATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATAATTTATTAAAATAATAAA
Found at i:111882280 original size:17 final size:16
Alignment explanation
Indices: 111882260--111882291 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
111882250 TTCATAAGTA
111882260 TATATCAATCATTTCAT
1 TATATCAAT-ATTTCAT
111882277 TATATCAATATTTCA
1 TATATCAATATTTCA
111882292 GGCTTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATCAATATTTCAT
Found at i:111882638 original size:46 final size:46
Alignment explanation
Indices: 111882573--111882937 Score: 466
Period size: 46 Copynumber: 8.0 Consensus size: 46
111882563 TTATCTTCGA
* * * ** *
111882573 CATGATGCCATAGTGTCTTTCAACTGTGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
* ***
111882619 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* ** **
111882665 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTC-TCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-GT
* * *
111882710 CATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
111882756 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
111882802 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
**
111882848 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
111882894 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
111882938 TTCAGACAGC
Statistics
Matches: 285, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
44 1 0.00
45 43 0.15
46 240 0.84
47 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:111888013 original size:13 final size:13
Alignment explanation
Indices: 111887995--111888020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111887985 TTGTGTGTTC
111887995 TTTATTTTATTTT
1 TTTATTTTATTTT
111888008 TTTATTTTATTTT
1 TTTATTTTATTTT
111888021 ATTTTTCACA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:111888625 original size:35 final size:32
Alignment explanation
Indices: 111888573--111888636 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
111888563 TAATACATCA
* *
111888573 AATACATTAAAAATATTAAAATAAATGTTTCTC
1 AATAAATTAAAAATATTAAAA-AAAAGTTTCTC
111888606 AATAAATTGAAAACATATTAAAAAAAAGTTT
1 AATAAATT-AAAA-ATATTAAAAAAAAGTTT
111888637 ATATTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 7 0.26
34 11 0.41
35 9 0.33
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (32 bp):
AATAAATTAAAAATATTAAAAAAAAGTTTCTC
Found at i:111889507 original size:2 final size:2
Alignment explanation
Indices: 111889500--111889530 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
111889490 GTTTTCCAGG
111889500 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
111889531 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:111897409 original size:20 final size:20
Alignment explanation
Indices: 111897348--111897409 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
111897338 GCCTAAAAGA
111897348 AAGGCATAATGCAGAAAACT
1 AAGGCATAATGCAGAAAACT
** * **
111897368 AAGGTGTAAT--ATAAAAGA
1 AAGGCATAATGCAGAAAACT
111897386 AAGGCATAATGCAGAAAACT
1 AAGGCATAATGCAGAAAACT
111897406 AAGG
1 AAGG
111897410 TGTTAAAAGA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 13 0.43
20 17 0.57
ACGTcount: A:0.52, C:0.10, G:0.23, T:0.16
Consensus pattern (20 bp):
AAGGCATAATGCAGAAAACT
Found at i:111900075 original size:22 final size:22
Alignment explanation
Indices: 111900047--111900091 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
111900037 CAGCTGCAGG
111900047 ATTGTCTGAAGGAGTGGTTTTC
1 ATTGTCTGAAGGAGTGGTTTTC
111900069 ATTGTCTGAAGGAGTGGTTTTC
1 ATTGTCTGAAGGAGTGGTTTTC
111900091 A
1 A
111900092 CTTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.09, G:0.31, T:0.40
Consensus pattern (22 bp):
ATTGTCTGAAGGAGTGGTTTTC
Found at i:111903449 original size:21 final size:21
Alignment explanation
Indices: 111903423--111903463 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111903413 AGACGAGCGA
* *
111903423 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
111903444 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
111903464 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:111907396 original size:2 final size:2
Alignment explanation
Indices: 111907385--111907430 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
111907375 TTTTAGAGTT
*
111907385 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111907427 TA TA
1 TA TA
111907431 ATTTTCAGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111908541 original size:2 final size:2
Alignment explanation
Indices: 111908534--111908565 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
111908524 AACTCAATCC
111908534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111908566 TATTGTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111913604 original size:21 final size:21
Alignment explanation
Indices: 111913554--111913625 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
111913544 CTTGATGCAA
*
111913554 CCACTGCTCCAGTTGAATCTT
1 CCACTGCTCCAATTGAATCTT
111913575 CCA-TGGCTCCAATTGAATCTT
1 CCACT-GCTCCAATTGAATCTT
* *
111913596 CAACTGCTCTAATTG-ATCCTT
1 CCACTGCTCCAATTGAAT-CTT
111913617 CCACTGCTC
1 CCACTGCTC
111913626 AATCCCTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.07
21 40 0.91
22 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (21 bp):
CCACTGCTCCAATTGAATCTT
Found at i:111918751 original size:27 final size:31
Alignment explanation
Indices: 111918693--111918752 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
111918683 TATTTAATTA
111918693 TTTATATTTAATAATATAATAATTTATTAAAAT
1 TTTATATTTAATAATATAAT-ATTTA-TAAAAT
111918726 TTTAT-TTTAATAATA-AAT-TTTA-AAAAT
1 TTTATATTTAATAATATAATATTTATAAAAT
111918753 AATAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 5 0.19
29 4 0.15
31 3 0.11
32 10 0.37
33 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTATATTTAATAATATAATATTTATAAAAT
Found at i:111918761 original size:15 final size:16
Alignment explanation
Indices: 111918734--111918763 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111918724 ATTTTATTTT
111918734 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
111918750 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
111918764 GTTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:111922953 original size:24 final size:24
Alignment explanation
Indices: 111922921--111922989 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
111922911 TACCGATATA
111922921 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
* * *
111922945 TCAGCTCGTCAGAGCTTGCCG-TT
1 TCAGCTCGTAAGAGCTTACTGTTT
*
111922968 TCAGCTC-AATAGAGCTTACTGT
1 TCAGCTCGTA-AGAGCTTACTGT
111922990 CCATCAGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACTGTTT
Found at i:111922973 original size:23 final size:24
Alignment explanation
Indices: 111922896--111922974 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
111922886 GGACTCACCA
* * *
111922896 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTCGTAAGAGCTTACCG-T-TTT
*
111922922 CAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACCGTTTT
* *
111922946 CAGCTCGTCAGAGCTTGCCG-TTT
1 CAGCTCGTAAGAGCTTACCGTTTT
111922969 CAGCTC
1 CAGCTC
111922975 AATAGAGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 9 0.20
24 19 0.41
25 1 0.02
26 17 0.37
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCGTTTT
Found at i:111931523 original size:3 final size:3
Alignment explanation
Indices: 111931511--111931548 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
111931501 GCATTTCTAT
111931511 TTC TTC -TC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TT
111931549 ATATTTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:111941665 original size:18 final size:18
Alignment explanation
Indices: 111941643--111941686 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
111941633 TATGAAATAA
111941643 ATAAAAACT-TTTTAAAAT
1 ATAAAAA-TATTTTAAAAT
*
111941661 TTAAAAATAATTTTAAAAT
1 ATAAAAAT-ATTTTAAAAT
111941680 ATAAAAA
1 ATAAAAA
111941687 AATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 6 0.27
19 15 0.68
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAAATATTTTAAAAT
Found at i:111942073 original size:36 final size:36
Alignment explanation
Indices: 111942026--111942094 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
111942016 TAATTAGTTC
111942026 GACTCATTTTGAGATGATTTGGACTCATATTTTCCT
1 GACTCATTTTGAGATGATTTGGACTCATATTTTCCT
111942062 GACTCATTTTGAGATGATTTGGACTCATATTTT
1 GACTCATTTTGAGATGATTTGGACTCATATTTT
111942095 TAATCTTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.45
Consensus pattern (36 bp):
GACTCATTTTGAGATGATTTGGACTCATATTTTCCT
Found at i:111943864 original size:20 final size:21
Alignment explanation
Indices: 111943838--111943888 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
111943828 GCCAAACAGT
111943838 GAAAAAAAAAC-ACTGAAAAC
1 GAAAAAAAAACAACTGAAAAC
111943858 -AAAAAAAAACAACTGAAAAC
1 GAAAAAAAAACAACTGAAAAC
111943878 GAAATAAAAAA
1 GAAA-AAAAAA
111943889 TAAAAAACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.36
20 9 0.32
21 3 0.11
22 6 0.21
ACGTcount: A:0.75, C:0.12, G:0.08, T:0.06
Consensus pattern (21 bp):
GAAAAAAAAACAACTGAAAAC
Found at i:111961668 original size:12 final size:11
Alignment explanation
Indices: 111961637--111961664 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
111961627 TATATATATT
111961637 TAAAAATTATA
1 TAAAAATTATA
111961648 TAAAAATTATA
1 TAAAAATTATA
111961659 TAAAAA
1 TAAAAA
111961665 ATTAATATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:111966848 original size:21 final size:22
Alignment explanation
Indices: 111966809--111966849 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
111966799 CCTACCATGG
111966809 CTTGTATTTTAGTTGAATGATT
1 CTTGTATTTTAGTTGAATGATT
* *
111966831 CTTGTTTTTTA-TTTAATGA
1 CTTGTATTTTAGTTGAATGA
111966850 AGGAACCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.59
Consensus pattern (22 bp):
CTTGTATTTTAGTTGAATGATT
Found at i:111967175 original size:2 final size:2
Alignment explanation
Indices: 111967163--111967204 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
111967153 CTATGGAAAG
*
111967163 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111967205 AGTGCAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:111968786 original size:22 final size:21
Alignment explanation
Indices: 111968752--111968798 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
111968742 AATAACAATA
*
111968752 AAAATATAGCAAAATGACAGC
1 AAAATATAACAAAATGACAGC
**
111968773 AAAATAATAACAAAATGTTAGC
1 AAAAT-ATAACAAAATGACAGC
111968795 AAAA
1 AAAA
111968799 CAACAACGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (21 bp):
AAAATATAACAAAATGACAGC
Found at i:111968795 original size:33 final size:33
Alignment explanation
Indices: 111968758--111968821 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
111968748 AATAAAAATA
** * *
111968758 TAGCAAAATGACAGCAAAATAATAACAAAATGT
1 TAGCAAAACAACAACAAAACAATAACAAAATGT
*
111968791 TAGCAAAACAACAACGAAACAATAACAAAAT
1 TAGCAAAACAACAACAAAACAATAACAAAAT
111968822 AATTGATTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (33 bp):
TAGCAAAACAACAACAAAACAATAACAAAATGT
Found at i:111976486 original size:20 final size:21
Alignment explanation
Indices: 111976445--111976488 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
111976435 TTGTGTACAA
*
111976445 TAAAAATGAACAAAATTGTGT
1 TAAAAATGAACAAAATTATGT
*
111976466 TAAAAATGAATAAAA-TATGT
1 TAAAAATGAACAAAATTATGT
111976486 TAA
1 TAA
111976489 CGAGGTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (21 bp):
TAAAAATGAACAAAATTATGT
Found at i:111977328 original size:26 final size:26
Alignment explanation
Indices: 111977299--111977351 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
111977289 GGAAGAAAAT
* *
111977299 TAAAAAAATACAATTAAAATTTTTGA
1 TAAAAAAACACAATTAAAAGTTTTGA
*
111977325 TAAAAAAACATAATTAAAAGTTTTGA
1 TAAAAAAACACAATTAAAAGTTTTGA
111977351 T
1 T
111977352 TGAAATTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (26 bp):
TAAAAAAACACAATTAAAAGTTTTGA
Found at i:111978086 original size:10 final size:10
Alignment explanation
Indices: 111978067--111978116 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
111978057 TTAAATTCTA
111978067 AAAGATAAAT
1 AAAGATAAAT
111978077 ACAA-ATAAAT
1 A-AAGATAAAT
*
111978087 AAAGATAATT
1 AAAGATAAAT
111978097 AAAGATAAAT
1 AAAGATAAAT
111978107 GAAA-ATAAAT
1 -AAAGATAAAT
111978117 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111978149 original size:13 final size:12
Alignment explanation
Indices: 111978133--111978165 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
111978123 ATTAAATCTA
111978133 AATAATAATCCTT
1 AATAATAATCC-T
111978146 AATAATAATCCT
1 AATAATAATCCT
111978158 AAT-ATAAT
1 AATAATAAT
111978166 TAAACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATAATCCT
Found at i:111978984 original size:8 final size:8
Alignment explanation
Indices: 111978968--111979021 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
111978958 GAATTTACTT
111978968 ATTATATA
1 ATTATATA
*
111978976 ATTAAATA
1 ATTATATA
111978984 ATTATATA
1 ATTATATA
111978992 A--AGTA-A
1 ATTA-TATA
111978998 ATTATATTAA
1 ATTATA-T-A
111979008 ATTATATA
1 ATTATATA
111979016 ATTATA
1 ATTATA
111979022 ATATATTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
6 3 0.08
7 4 0.11
8 23 0.61
9 1 0.03
10 7 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (8 bp):
ATTATATA
Found at i:111995800 original size:21 final size:20
Alignment explanation
Indices: 111995776--111995834 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
111995766 TGTATATATA
111995776 TAAATTTACTTATTATATAAG
1 TAAATTTA-TTATTATATAAG
*
111995797 TAAA-TAATTA-TATA-AAG
1 TAAATTTATTATTATATAAG
111995814 TAAATTATATTACTTATATAA
1 TAAATT-TATTA-TTATATAA
111995835 TTATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 7 0.23
18 5 0.16
19 7 0.23
20 2 0.06
21 8 0.26
22 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (20 bp):
TAAATTTATTATTATATAAG
Found at i:111995808 original size:16 final size:17
Alignment explanation
Indices: 111995787--111995818 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
111995777 AAATTTACTT
111995787 ATTATAT-AAGTAAATA
1 ATTATATAAAGTAAATA
111995803 ATTATATAAAGTAAAT
1 ATTATATAAAGTAAAT
111995819 TATATTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTATATAAAGTAAATA
Found at i:111997242 original size:31 final size:31
Alignment explanation
Indices: 111997204--111997265 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
111997194 CGTCTCGAGC
111997204 TCCATCTCATCTTTTACGTCAAATAGCTCAT
1 TCCATCTCATCTTTTACGTCAAATAGCTCAT
111997235 TCCATCTCATCTTTTACGTCAAATAGCTCAT
1 TCCATCTCATCTTTTACGTCAAATAGCTCAT
111997266 ACTTAAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (31 bp):
TCCATCTCATCTTTTACGTCAAATAGCTCAT
Found at i:112006374 original size:40 final size:40
Alignment explanation
Indices: 112006319--112006510 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
112006309 CGGATGATAA
112006319 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
112006359 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
112006399 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
112006439 CCGGGATAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* * *
112006479 CCGGGTTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
112006511 AGCTATATCC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:112014495 original size:40 final size:40
Alignment explanation
Indices: 112014333--112014488 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
112014323 TATTCGGACG
112014333 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
112014373 A-ACTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
112014413 A-AATCCGGGATAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
112014453 ATAACCGGGTTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
112014489 AGCTATATCC
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:112018265 original size:42 final size:42
Alignment explanation
Indices: 112018138--112018313 Score: 158
Period size: 42 Copynumber: 4.0 Consensus size: 42
112018128 CTTCGTTTTC
** * * ** *
112018138 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACAAAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCAC-ATA
* * *
112018181 T-GATGCCATAACCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
112018222 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---A-ATCACATA
* *
112018271 TCGATGCCATAGCCCAGTTATGGTCTTACAC-GAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
112018312 TC
1 TC
112018314 TCACTGATGC
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 13 0.12
42 59 0.53
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.32
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATA
Found at i:112018281 original size:49 final size:48
Alignment explanation
Indices: 112018208--112018390 Score: 194
Period size: 49 Copynumber: 3.8 Consensus size: 48
112018198 TATGGTCTTA
* *
112018208 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACG-AAT
*
112018258 CACATATCACATATCGATGCCATAGCCCAGTTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGAAT
* * * * * *
112018306 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GAAT
* * * *
112018353 CATATATCAC--ACCGATGCCATATCCCAGATATGTTCTT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTT
112018391 GTACGGAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
46 26 0.22
47 35 0.30
48 13 0.11
49 37 0.32
50 6 0.05
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGAAT
Found at i:112018375 original size:47 final size:46
Alignment explanation
Indices: 112018223--112018390 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 46
112018213 ATTCATATAT
* *
112018223 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * *
112018272 CGATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
112018318 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
* *
112018365 CGATGCCATATCCCAGATATGTTCTT
1 CGATGCCATAGCCCAGATATGGTCTT
112018391 GTACGGAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 27 0.26
47 36 0.35
48 11 0.11
49 30 0.29
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:112018403 original size:95 final size:94
Alignment explanation
Indices: 112018182--112018390 Score: 225
Period size: 95 Copynumber: 2.3 Consensus size: 94
112018172 TTCACAAAAT
* * * * *
112018182 GATGCCATAACCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
112018242 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* *
112018273 GATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
112018338 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
* *
112018366 GATGCCATATCCCAGATATGTTCTT
1 GATGCCATAGCCCAGATATGGTCTT
112018391 GTACGGAAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 29 0.29
92 7 0.07
93 24 0.24
94 1 0.01
95 36 0.36
96 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:112018448 original size:31 final size:31
Alignment explanation
Indices: 112018413--112018561 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
112018403 CTTGTCACTT
*
112018413 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
112018444 GTAGCCGGTA-CTACCAATTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
112018475 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
112018506 GTAGTCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
112018537 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
112018562 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.96
32 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:112018658 original size:25 final size:25
Alignment explanation
Indices: 112018582--112018658 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
112018572 CATTGATCAG
112018582 ATAAGTGTAGCCGAAGCTATCACTT
1 ATAAGTGTAGCCGAAGCTATCACTT
*
112018607 ACAAGTGTAGCCGAAGCTATCACTT
1 ATAAGTGTAGCCGAAGCTATCACTT
112018632 ATAAGTGTAGCCGAAGCTATCACTT
1 ATAAGTGTAGCCGAAGCTATCACTT
112018657 AT
1 AT
112018659 CACTTTCACT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (25 bp):
ATAAGTGTAGCCGAAGCTATCACTT
Found at i:112025944 original size:16 final size:16
Alignment explanation
Indices: 112025925--112025979 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
112025915 AAATAATAAA
*
112025925 AAACCTTAAAATA-CAT
1 AAACC-TAAAAAACCAT
*
112025941 AAACCCAAAAAACCAT
1 AAACCTAAAAAACCAT
112025957 AAACCT-AAAAACCA-
1 AAACCTAAAAAACCAT
*
112025971 AACCCTAAA
1 AAACCTAAA
112025980 CCTAGAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 5 0.15
15 15 0.45
16 13 0.39
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (16 bp):
AAACCTAAAAAACCAT
Found at i:112025968 original size:15 final size:15
Alignment explanation
Indices: 112025925--112025979 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
112025915 AAATAATAAA
112025925 AAACCTTAAAATA-CAT
1 AAACC-TAAAA-ACCAT
*
112025941 AAACCCAAAAAACCAT
1 AAA-CCTAAAAACCAT
112025957 AAACCTAAAAACCA-
1 AAACCTAAAAACCAT
*
112025971 AACCCTAAA
1 AAACCTAAA
112025980 CCTAGAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 11 0.32
16 13 0.38
17 2 0.06
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCTAAAAACCAT
Found at i:112025979 original size:20 final size:20
Alignment explanation
Indices: 112025950--112025999 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
112025940 TAAACCCAAA
*
112025950 AAACCATAAACCTA-AAAACC
1 AAACCCTAAACCTAGAAAA-C
112025970 AAACCCTAAACCTAGAAAAC
1 AAACCCTAAACCTAGAAAAC
112025990 AAACCCTAAA
1 AAACCCTAAA
112026000 AACTTTTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.58, C:0.30, G:0.02, T:0.10
Consensus pattern (20 bp):
AAACCCTAAACCTAGAAAAC
Found at i:112026658 original size:9 final size:10
Alignment explanation
Indices: 112026630--112026659 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
112026620 ATCACATGTG
112026630 TTTATTTTAA
1 TTTATTTTAA
112026640 TTTATTTTAA
1 TTTATTTTAA
112026650 TTT-TTTTAA
1 TTTATTTTAA
112026659 T
1 T
112026660 ATCTCCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:112030715 original size:16 final size:16
Alignment explanation
Indices: 112030690--112030720 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112030680 TTACCACTTA
*
112030690 ATAAATCAAAATAGAG
1 ATAAACCAAAATAGAG
112030706 ATAAACCAAAATAGA
1 ATAAACCAAAATAGA
112030721 TCATATTCTT
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:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (16 bp):
ATAAACCAAAATAGAG
Found at i:112033981 original size:6 final size:6
Alignment explanation
Indices: 112033972--112033996 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
112033962 ATATCCAGTA
112033972 CCTCTC CCTCTC CCTCTC CCTCTC C
1 CCTCTC CCTCTC CCTCTC CCTCTC C
112033997 ATCCATCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCTC
Found at i:112034003 original size:4 final size:4
Alignment explanation
Indices: 112033994--112034018 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
112033984 CCTCTCCCTC
112033994 TCCA TCCA TCCA TCCA TCCA TCCA T
1 TCCA TCCA TCCA TCCA TCCA TCCA T
112034019 ATATATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (4 bp):
TCCA
Found at i:112034367 original size:118 final size:116
Alignment explanation
Indices: 112034159--112034394 Score: 352
Period size: 118 Copynumber: 2.0 Consensus size: 116
112034149 TCTCTTAGAG
** *
112034159 GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAAAATTTTTGGAAAAATGGAAAACTAAAG
1 GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAAAATAATTGGAAAAACGGAAAACTAAAG
112034224 GGGGAGAAAAATAGAAAGATAGAAAAAAAATACTATTTTATT-TTCATTGGCAT
66 GGGGAGAAAAATAGAAAGATAG-AAAAAAATACT-TTTT-TTCTTCATTGGCAT
* *
112034277 GCATATTAACTTTAAGGCTTTGCTTGGTAAGGTGAAAAGAA-AATTGGAAAAACGGAAAATTAAA
1 GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAA-AATAATTGGAAAAACGGAAAACTAAA
*
112034341 -GGGGAGAAACATAGAAAGATAGGAAAAAAATACTTTTTTTCTTCATTGGCAT
65 GGGGGAGAAAAATAGAAAGATA-GAAAAAAATACTTTTTTTCTTCATTGGCAT
112034393 GC
1 GC
112034395 TTAGTAGGAA
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
115 2 0.02
116 17 0.16
117 31 0.28
118 57 0.52
119 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (116 bp):
GCATATTAACTCTAAGGCTTTGCTTGGTAAGGTGAAAAAATAATTGGAAAAACGGAAAACTAAAG
GGGGAGAAAAATAGAAAGATAGAAAAAAATACTTTTTTTCTTCATTGGCAT
Found at i:112038622 original size:3 final size:3
Alignment explanation
Indices: 112038614--112038642 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
112038604 AGGAAGGAAG
112038614 GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
112038643 AACAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:112043397 original size:27 final size:27
Alignment explanation
Indices: 112043365--112043416 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
112043355 AACAAAAATT
*
112043365 GAGAGAATTGAAATTTTAGAGAGAACA
1 GAGAGAATTGAAAGTTTAGAGAGAACA
112043392 GAGAGAATTGAAAGTTTAGAGAGAA
1 GAGAGAATTGAAAGTTTAGAGAGAA
112043417 AAGAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (27 bp):
GAGAGAATTGAAAGTTTAGAGAGAACA
Found at i:112044014 original size:12 final size:12
Alignment explanation
Indices: 112043997--112044039 Score: 61
Period size: 11 Copynumber: 3.6 Consensus size: 12
112043987 AAAAAATCAT
112043997 AAAATTTATAAA
1 AAAATTTATAAA
112044009 AAAATTTATTAAA
1 AAAATTTA-TAAA
*
112044022 AATATTT-TAAA
1 AAAATTTATAAA
112044033 AAAATTT
1 AAAATTT
112044040 TTATCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 8 0.29
13 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:112044048 original size:13 final size:14
Alignment explanation
Indices: 112044001--112044052 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 14
112043991 AATCATAAAA
112044001 TTTATAAAAAA-A-
1 TTTATAAAAAATAT
*
112044013 TTTATTAAAAATAT
1 TTTATAAAAAATAT
112044027 TTTA-AAAAAAT-T
1 TTTATAAAAAATAT
112044039 TTTATCAAAAAATA
1 TTTAT-AAAAAATA
112044053 ACAATACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 15 0.45
13 7 0.21
14 11 0.33
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TTTATAAAAAATAT
Found at i:112044168 original size:21 final size:20
Alignment explanation
Indices: 112044135--112044173 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
112044125 TCGGTATTGT
112044135 TATTTTATAATAAATTTTTTA
1 TATTTTATAAT-AATTTTTTA
* *
112044156 TATTTTTTTATAATTTTT
1 TATTTTATAATAATTTTT
112044174 AATAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTATAATAATTTTTTA
Found at i:112045811 original size:131 final size:131
Alignment explanation
Indices: 112045648--112045908 Score: 432
Period size: 131 Copynumber: 2.0 Consensus size: 131
112045638 AATTCAGAGA
* * *
112045648 ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGTAAATTGCAACCCAGCAT
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
* * *
112045713 GATAGGACATGATTCCCCGAATGGCCAAACATCAAACATTATCTTCGTTTTGAAGAATTTTTAAA
66 GATAGGACACGATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
112045778 G
131 G
*
112045779 ACATGAGTGAAATTCCAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
* * *
112045844 GATAGGGCACGATTCCCCGAATGGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA
66 GATAGGACACGATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
112045909 TGAATAATTA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 120 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (131 bp):
ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
GATAGGACACGATTCCCCGAATGGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
G
Found at i:112047270 original size:53 final size:53
Alignment explanation
Indices: 112047189--112047339 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
112047179 CTTACACGGT
* *
112047189 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
112047244 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
112047297 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
112047340 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:112050272 original size:21 final size:21
Alignment explanation
Indices: 112050234--112050350 Score: 162
Period size: 21 Copynumber: 5.5 Consensus size: 21
112050224 CCTGATCAGT
** * *
112050234 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
112050255 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
112050276 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
112050297 ATATGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
112050318 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
112050339 AAATACGACACA
1 --ATACGACACA
112050351 TAAAGTGTCT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
21 76 0.88
23 10 0.12
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:112050752 original size:14 final size:14
Alignment explanation
Indices: 112050733--112050788 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
112050723 CATGTATATT
*
112050733 ATATAACTCAATCA
1 ATATAATTCAATCA
112050747 ATATAAATTCAATCA
1 ATAT-AATTCAATCA
112050762 A-ATAATTTCAATCA
1 ATATAA-TTCAATCA
112050776 ATATAAATTCAAT
1 ATAT-AATTCAAT
112050789 AAATTCATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 2 0.05
14 15 0.41
15 18 0.49
16 2 0.05
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:112050760 original size:15 final size:15
Alignment explanation
Indices: 112050740--112050788 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
112050730 ATTATATAAC
112050740 TCAATCAATATAAAT
1 TCAATCAATATAAAT
*
112050755 TCAATCAA-ATAATT
1 TCAATCAATATAAAT
112050769 TCAATCAATATAAAT
1 TCAATCAATATAAAT
112050784 TCAAT
1 TCAAT
112050789 AAATTCATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (15 bp):
TCAATCAATATAAAT
Found at i:112054434 original size:34 final size:34
Alignment explanation
Indices: 112054329--112054434 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
112054319 GGGTTTAAAA
* *
112054329 TTTTTAA-AAAAATAATTAAATTAGGTTTTAAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGATTT-AGGG
* **
112054363 -TTTTAAGTAAATTAATTAAATTAAAATTTAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGATTTAGGG
*
112054396 TTTTTAAGAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGATTTAGGG
112054430 TTTTT
1 TTTTT
112054435 TAAAAATAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
33 10 0.16
34 51 0.84
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (34 bp):
TTTTTAAGAAAATTAATTAAATTAGGATTTAGGG
Found at i:112055048 original size:126 final size:125
Alignment explanation
Indices: 112054531--112055048 Score: 668
Period size: 125 Copynumber: 4.2 Consensus size: 125
112054521 TTTGTTTTTT
* * * *
112054531 TTTTTCTACAGTAGTTTCTGAAAAATTAATTATGAGAAGACAATTCTAAAAAAATAGTGA-CAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGT-ATCAAA
* ** * *
112054595 AACACTTCAAGCAGGATACACTATCAACAAAAGTACTG-AAAAAGCTCCCACGTGGATGCTC
64 AACACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
112054656 TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAAAT-G--TCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCT-AAAAAAATAGTATCAAAA
* * *
112054718 ACACTTCAAGCAGTATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
65 ACACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * *
112054779 TTTTTATACAGTAGTTCCTGAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAATATAAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTATCAAAAA
* * * * * *
112054844 CGCTTCAAACATGATGCACTGTTAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTA
66 CACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
112054904 TTTTTCTACAGTATTTCCTAAAAATATAATTTTGAGAAGACGATTCTAAAAAAATAGTATCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAA-ATAATTTTGAGAAGACGATTCTAAAAAAATAGTATCAAAA
* *
112054969 ACGCTTCAAGCAGGATGCACTATCAGTAAAATTATTGAAAAAAGCTCCCACGTGGACGCTC
65 ACACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
112055030 TTTTTCTATAATAGTTCCT
1 TTTTTCTACAGTAGTTCCT
112055049 GCTTGGCCTT
Statistics
Matches: 343, Mismatches: 43, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
122 43 0.13
123 64 0.19
124 23 0.07
125 107 0.31
126 106 0.31
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTATCAAAAA
CACTTCAAGCAGGATGCACTATCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:112059934 original size:18 final size:18
Alignment explanation
Indices: 112059894--112059936 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
112059884 GACTGGGAAA
* *
112059894 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
112059912 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
112059930 CGGATAC
1 AGGATAC
112059937 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:112065776 original size:24 final size:24
Alignment explanation
Indices: 112065732--112065777 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
112065722 ATATATACCA
112065732 ATTCAATCAATATAAATTCAATAT
1 ATTCAATCAATATAAATTCAATAT
112065756 ATTC-ATCACATACTAAA-TCAAT
1 ATTCAATCA-ATA-TAAATTCAAT
112065778 CCATTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTCAATCAATATAAATTCAATAT
Found at i:112066563 original size:8 final size:8
Alignment explanation
Indices: 112066515--112066571 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
112066505 CTTATTTTAT
112066515 TATTATAA
1 TATTATAA
*
112066523 TATAATATA
1 TATTATA-A
*
112066532 TACT-TAA
1 TATTATAA
112066539 TAATTA-AA
1 T-ATTATAA
112066547 -ATT-TAA
1 TATTATAA
112066553 TATTATAA
1 TATTATAA
112066561 TATTATAA
1 TATTATAA
112066569 TAT
1 TAT
112066572 ATATTTTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
6 5 0.13
7 5 0.13
8 26 0.67
9 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
TATTATAA
Found at i:112074749 original size:26 final size:26
Alignment explanation
Indices: 112074720--112074826 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
112074710 TAATACAAAT
112074720 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112074746 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112074771 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112074797 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112074823 TGAT
1 TGAT
112074827 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112074775 original size:51 final size:52
Alignment explanation
Indices: 112074720--112074826 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 52
112074710 TAATACAAAT
*
112074720 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
112074771 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
112074823 TGAT
1 TGAT
112074827 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 33 0.61
52 21 0.39
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:112081475 original size:26 final size:26
Alignment explanation
Indices: 112081446--112081553 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
112081436 TGATACAAAT
112081446 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112081472 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112081498 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112081524 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112081550 TGAT
1 TGAT
112081554 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112085337 original size:6 final size:6
Alignment explanation
Indices: 112085307--112085499 Score: 128
Period size: 6 Copynumber: 31.3 Consensus size: 6
112085297 AAGAAACATT
* * * *
112085307 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
112085354 GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
112085405 ATCAGT TTCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
112085456 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
112085500 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 22, Indels: 34
0.73 0.11 0.17
Matches are distributed among these distances:
5 10 0.07
6 119 0.80
7 13 0.09
8 6 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:112085380 original size:37 final size:37
Alignment explanation
Indices: 112085330--112085408 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
112085320 TCAAAATGAG
* * *
112085330 AATCAGAATCAGAATTAGAATTAGGTGACAGAATCAA
1 AATCAAAATCAGAATCAGAATTAGGTAACAGAATCAA
*
112085367 AATCAAAATCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAAAATCAGAATCAGAATTAGGTAACAGAATCAA
112085404 AATCA
1 AATCA
112085409 GTTTCAGGTA
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:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (37 bp):
AATCAAAATCAGAATCAGAATTAGGTAACAGAATCAA
Found at i:112085425 original size:62 final size:62
Alignment explanation
Indices: 112085333--112085495 Score: 247
Period size: 62 Copynumber: 2.6 Consensus size: 62
112085323 AAATGAGAAT
* * * * *
112085333 CAGAATCAGAATTAGAATT-AGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAG-TTTCAGGTAACAGAATCAGAATCAAAACCAGAATCAGAATTAGGTAA
*
112085395 CAGAATCAGAATCAGTTTCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTTTCAGGTAACAGAATCAGAATCAAAACCAGAATCAGAATTAGGTAA
*
112085457 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCA
1 CAGAATCAGAATCAGTTTCAGGTAACAGAATCAGAATCA
112085496 GAATGTGAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
61 2 0.02
62 91 0.98
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (62 bp):
CAGAATCAGAATCAGTTTCAGGTAACAGAATCAGAATCAAAACCAGAATCAGAATTAGGTAA
Found at i:112085436 original size:37 final size:37
Alignment explanation
Indices: 112085395--112085477 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 37
112085385 AATTAGGTAA
*
112085395 CAGAATCAGAATCAG-TTTCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATT-AGGTAACAGAATCAGAAT
*
112085432 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
*
112085469 CAGTATCAG
1 CAGAATCAG
112085478 GTAACAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 39 0.95
38 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAAT
Found at i:112085466 original size:25 final size:25
Alignment explanation
Indices: 112085333--112085499 Score: 116
Period size: 25 Copynumber: 6.7 Consensus size: 25
112085323 AAATGAGAAT
* * *
112085333 CAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
112085358 CAGAATCAAAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGGTAA
*
112085381 TCAGAATTAGGTAA-CAGAATCA-G-AA
1 -CAGAATCA-G-AATCAGAATCAGGTAA
**
112085406 TCAGTTTCAGGTAA-CAGAATCA-G-AA
1 -CAGAATCA-G-AATCAGAATCAGGTAA
* *
112085431 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGGTAA
*
112085457 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
112085482 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
112085500 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.03
24 16 0.14
25 94 0.80
26 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:112085490 original size:19 final size:19
Alignment explanation
Indices: 112085339--112085471 Score: 103
Period size: 19 Copynumber: 6.8 Consensus size: 19
112085329 GAATCAGAAT
* * *
112085339 CAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGGTAA
* *
112085358 CAGAATCAAAATCA--AAA
1 CAGAATCAGAATCAGGTAA
*
112085375 TCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
112085395 CAGAATCAGAATCAGTTTCAGGTAA
1 CAGAATCAG-A--A---TCAGGTAA
112085420 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
112085437 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
112085457 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
112085472 TATCAGGTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.03
18 26 0.29
19 38 0.42
20 5 0.05
22 2 0.02
24 1 0.01
25 16 0.18
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:112085681 original size:2 final size:2
Alignment explanation
Indices: 112085674--112085705 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
112085664 ACCAGAACAG
112085674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112085706 GGCGAAGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.