Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 58 of 145
Found at i:18830342 original size:9 final size:9
Alignment explanation
Indices: 18830325--18830355 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18830315 TCGAGTTGAT
18830325 TCGAATAAC
1 TCGAATAAC
*
18830334 TCGATTAAC
1 TCGAATAAC
18830343 TCGAATAAC
1 TCGAATAAC
18830352 TCGA
1 TCGA
18830356 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:18831146 original size:19 final size:20
Alignment explanation
Indices: 18831075--18831174 Score: 64
Period size: 19 Copynumber: 5.2 Consensus size: 20
18831065 GAAGAAATTC
18831075 AAATATTATA-AAATTTATA
1 AAATATTATAGAAATTTATA
* * * ** *
18831094 AAAAATTAAAAAAAGATACA
1 AAATATTATAGAAATTTATA
** *
18831114 AAA-ATCGTAAAAATTTATA
1 AAATATTATAGAAATTTATA
*
18831133 AAATA-TATAGAAATATA-A
1 AAATATTATAGAAATTTATA
* *
18831151 AAAAATTATAGAATTTTATA
1 AAATATTATAGAAATTTATA
18831171 AAAT
1 AAAT
18831175 TGAAAATTAT
Statistics
Matches: 58, Mismatches: 19, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
18 5 0.09
19 39 0.67
20 14 0.24
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATATTATAGAAATTTATA
Found at i:18831155 original size:38 final size:39
Alignment explanation
Indices: 18831084--18831174 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 39
18831074 CAAATATTAT
* * *
18831084 AAAATTTATAAAAAATTAAAAAAAGATACAAAAATCGTA
1 AAAATTTATAAAATATTAAAAAAAGATAAAAAAATCATA
* * * *
18831123 AAAATTTATAAAATA-TATAGAAATATAAAAAAATTATA
1 AAAATTTATAAAATATTAAAAAAAGATAAAAAAATCATA
* *
18831161 GAATTTTATAAAAT
1 AAAATTTATAAAAT
18831175 TGAAAATTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
38 29 0.67
39 14 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (39 bp):
AAAATTTATAAAATATTAAAAAAAGATAAAAAAATCATA
Found at i:18839245 original size:14 final size:14
Alignment explanation
Indices: 18839222--18839263 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
18839212 ACAGAAAAGT
*
18839222 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18839236 AAATCATTTTACGG
1 AAAACATTTTACAG
18839250 AAAACATTTTACAG
1 AAAACATTTTACAG
18839264 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18844648 original size:45 final size:45
Alignment explanation
Indices: 18844599--18844855 Score: 300
Period size: 45 Copynumber: 5.7 Consensus size: 45
18844589 CTGGCAAAAA
* * * *
18844599 AAGATTCATAGATATGGTGAACTCATACATGCGGTTTCATGGTAG
1 AAGATTCATAGATATGGCGAACTCATACATGCGGATTCATAGAAG
* * * *
18844644 AAGATTCAT-GAATATGGCAAACTCGTATATGCGGATTCATAGTAG
1 AAGATTCATAG-ATATGGCGAACTCATACATGCGGATTCATAGAAG
* * *
18844689 AAGATTCATAGATATGACGAACTCATACATGTGGATTCATAGCAG
1 AAGATTCATAGATATGGCGAACTCATACATGCGGATTCATAGAAG
* * * *
18844734 AAGATTTATAGATATGGTGGACTCATACATGCGGATTCATAGAAA
1 AAGATTCATAGATATGGCGAACTCATACATGCGGATTCATAGAAG
** * *
18844779 AAGATTCATAGATATGATGGACTCATACATGCGGATTCATAAAAG
1 AAGATTCATAGATATGGCGAACTCATACATGCGGATTCATAGAAG
* * *
18844824 AAGATTCATAAATATGGCGGACTAATACATGC
1 AAGATTCATAGATATGGCGAACTCATACATGC
18844856 AAACTGTGTC
Statistics
Matches: 183, Mismatches: 27, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
44 1 0.01
45 181 0.99
46 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (45 bp):
AAGATTCATAGATATGGCGAACTCATACATGCGGATTCATAGAAG
Found at i:18844815 original size:135 final size:133
Alignment explanation
Indices: 18844599--18844854 Score: 334
Period size: 135 Copynumber: 1.9 Consensus size: 133
18844589 CTGGCAAAAA
* * * *
18844599 AAGATTCATAGATATGGTGAACTCATACATGCGGTTTCATGGTAGAAGATTCATGAATATGGCAA
1 AAGATTCATAGATATGGTGAACTCATACATGCGGATTCATAGAAAAAGATTCATGAATATGG--A
* * ** * *
18844664 ACTCGTATATGCGGATTCATAGTAGAAGATTCATAGATATGACGAACTCATACATGTGGATTCAT
64 ACTCATACATGCGGATTCATAAAAGAAGATTCATAAATATGACGAACTAATACATGTGGATTCAT
18844729 AGCAG
129 AGCAG
* *
18844734 AAGATTTATAGATATGGTGGACTCATACATGCGGATTCATAGAAAAAGATTCATAGATATGATGG
1 AAGATTCATAGATATGGTGAACTCATACATGCGGATTCATAGAAAAAGATTCAT-GA-AT-ATGG
* *
18844799 -ACTCATACATGCGGATTCATAAAAGAAGATTCATAAATATGGCGGACTAATACATG
63 AACTCATACATGCGGATTCATAAAAGAAGATTCATAAATATGACGAACTAATACATG
18844855 CAAACTGTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
135 96 0.92
136 2 0.02
137 2 0.02
138 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (133 bp):
AAGATTCATAGATATGGTGAACTCATACATGCGGATTCATAGAAAAAGATTCATGAATATGGAAC
TCATACATGCGGATTCATAAAAGAAGATTCATAAATATGACGAACTAATACATGTGGATTCATAG
CAG
Found at i:18845083 original size:13 final size:13
Alignment explanation
Indices: 18845065--18845098 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
18845055 ATATATCTCA
18845065 GTACAATCCAATC
1 GTACAATCCAATC
18845078 GTACAATCCAATC
1 GTACAATCCAATC
18845091 GTACAATC
1 GTACAATC
18845099 GCAAAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (13 bp):
GTACAATCCAATC
Found at i:18851452 original size:11 final size:12
Alignment explanation
Indices: 18851431--18851469 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
18851421 AATAGAGGAC
*
18851431 TAAATTGAAATT
1 TAAAGTGAAATT
18851443 TAAA-TGAAATT
1 TAAAGTGAAATT
*
18851454 TAAAGTGAAAAT
1 TAAAGTGAAATT
18851466 TAAA
1 TAAA
18851470 AAAAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
TAAAGTGAAATT
Found at i:18852645 original size:23 final size:23
Alignment explanation
Indices: 18852616--18852660 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
18852606 TTGGGCTTCT
18852616 GGGTAGTTTAGGTAATTGGGCTA
1 GGGTAGTTTAGGTAATTGGGCTA
18852639 GGGTAGTTTAGGTAATTGGGCT
1 GGGTAGTTTAGGTAATTGGGCT
18852661 TGTAAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.40, T:0.36
Consensus pattern (23 bp):
GGGTAGTTTAGGTAATTGGGCTA
Found at i:18852745 original size:2 final size:2
Alignment explanation
Indices: 18852738--18852767 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18852728 GGCCATTACA
18852738 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
18852768 GTAATTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18853091 original size:184 final size:185
Alignment explanation
Indices: 18852771--18853139 Score: 731
Period size: 184 Copynumber: 2.0 Consensus size: 185
18852761 TATATATGTA
18852771 ATTAACATGATTTAACAACAATTTGAAATCACATAAGTCGTATGAACTTACCTGTCGAAATGGTA
1 ATTAACATGATTTAACAACAATTTGAAATCACATAAGTCGTATGAACTTACCTGTCGAAATGGTA
18852836 ACAGTTTAACTATCAAAGATTAGTTGGTAATTCTATTTCCTCATACGTACTCTGATCGTTGAGAT
66 ACAGTTTAACTATCAAAGATTAGTTGGTAATTCTATTTCCTCATACGTACTCTGATCGTTGAGAT
18852901 TCTTGATCTAAAGTGTAGTTTAATTTAATTGATCAATTTAAACAGCATAAACAAT
131 TCTTGATCTAAAGTGTAGTTTAATTTAATTGATCAATTTAAACAGCATAAACAAT
18852956 ATTAACATGA-TTAACAACAATTTGAAATCACATAAGTCGTATGAACTTACCTGTCGAAATGGTA
1 ATTAACATGATTTAACAACAATTTGAAATCACATAAGTCGTATGAACTTACCTGTCGAAATGGTA
18853020 ACAGTTTAACTATCAAAGATTAGTTGGTAATTCTATTTCCTCATACGTACTCTGATCGTTGAGAT
66 ACAGTTTAACTATCAAAGATTAGTTGGTAATTCTATTTCCTCATACGTACTCTGATCGTTGAGAT
18853085 TCTTGATCTAAAGTGTAGTTTAATTTAATTGATCAATTTAAACAGCATAAACAAT
131 TCTTGATCTAAAGTGTAGTTTAATTTAATTGATCAATTTAAACAGCATAAACAAT
18853140 CAAATTTATG
Statistics
Matches: 184, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
184 174 0.95
185 10 0.05
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (185 bp):
ATTAACATGATTTAACAACAATTTGAAATCACATAAGTCGTATGAACTTACCTGTCGAAATGGTA
ACAGTTTAACTATCAAAGATTAGTTGGTAATTCTATTTCCTCATACGTACTCTGATCGTTGAGAT
TCTTGATCTAAAGTGTAGTTTAATTTAATTGATCAATTTAAACAGCATAAACAAT
Found at i:18858593 original size:98 final size:98
Alignment explanation
Indices: 18858424--18858615 Score: 348
Period size: 98 Copynumber: 2.0 Consensus size: 98
18858414 AATAAAAATA
18858424 TTAAAAGAACATCCACTTATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCCT
1 TTAAAAGAACATCCACTTATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCCT
18858489 TTAGAATCCCGAACTCGGAATATTTCCTTTAAT
66 TTAGAATCCCGAACTCGGAATATTTCCTTTAAT
* * * *
18858522 TTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGTCACGATCCCT
1 TTAAAAGAACATCCACTTATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCCT
18858587 TTAGAATCCCGAACTCGGAATATTTCCTT
66 TTAGAATCCCGAACTCGGAATATTTCCTT
18858616 CATGACTTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
TTAAAAGAACATCCACTTATCCAAAATTTAAGAAACCACACCCAATACGTTAGGGCACGATCCCT
TTAGAATCCCGAACTCGGAATATTTCCTTTAAT
Found at i:18859465 original size:22 final size:22
Alignment explanation
Indices: 18859435--18859479 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18859425 ATTTTATTTT
18859435 CAAAACCTTCTTTTTAAAAAAA
1 CAAAACCTTCTTTTTAAAAAAA
* *
18859457 CAAATCCTTTTTTTTAAAAAAA
1 CAAAACCTTCTTTTTAAAAAAA
18859479 C
1 C
18859480 CTCTCAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (22 bp):
CAAAACCTTCTTTTTAAAAAAA
Found at i:18859870 original size:5 final size:5
Alignment explanation
Indices: 18859862--18859893 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
18859852 AAAAATCTGC
*
18859862 TTGAT TTGAT TTGAT TTGGT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTGAT TT
18859894 TTGTTTCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (5 bp):
TTGAT
Found at i:18863754 original size:17 final size:17
Alignment explanation
Indices: 18863732--18863791 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
18863722 TCTGGGCAAT
18863732 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
18863749 AGAAGAATAAGAGAAGAA
1 AGAAGAATAAGAGAA-AA
* *
18863767 ATGGAGAAGAAGA-AGAAA
1 A-GAAGAATAAGAGA-AAA
18863785 AGAAGAA
1 AGAAGAA
18863792 AAGGAGGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 20 0.54
18 7 0.19
19 10 0.27
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (17 bp):
AGAAGAATAAGAGAAAA
Found at i:18863776 original size:25 final size:25
Alignment explanation
Indices: 18863748--18863807 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
18863738 ATAAGAGAAA
* * *
18863748 AAGAAGAATAAGAGAAGAAATGGAG
1 AAGAAGAAGAAAAGAAGAAAAGGAG
18863773 AAGAAGAAGAAAAGAAGAAAAGGAG
1 AAGAAGAAGAAAAGAAGAAAAGGAG
*
18863798 GAGAAGAAGA
1 AAGAAGAAGA
18863808 GAAAATGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (25 bp):
AAGAAGAAGAAAAGAAGAAAAGGAG
Found at i:18863791 original size:28 final size:26
Alignment explanation
Indices: 18863742--18863812 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 26
18863732 AGAAGAATAA
*
18863742 GAGAAAAAGAAGAATAAGAGAAGAA-ATG
1 GAGAAGAAGAAGAA-AAGAGAA-AAGA-G
18863770 GAGAAGAAGAAGAAAAGAAGAAAAGGAG
1 GAGAAGAAGAAGAAAAG-AGAAAA-GAG
18863798 GAGAAGAAG-AGAAAA
1 GAGAAGAAGAAGAAAA
18863813 TGGAAGGACT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 11 0.28
28 27 0.69
29 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (26 bp):
GAGAAGAAGAAGAAAAGAGAAAAGAG
Found at i:18890432 original size:18 final size:18
Alignment explanation
Indices: 18890411--18890447 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18890401 TGAGTTTTCG
18890411 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
18890429 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
18890447 A
1 A
18890448 TCACACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:18902151 original size:5 final size:5
Alignment explanation
Indices: 18902141--18902183 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
18902131 GGTAAGTTCA
18902141 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAA
18902184 TTATTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:18902337 original size:45 final size:45
Alignment explanation
Indices: 18902288--18902502 Score: 306
Period size: 45 Copynumber: 4.8 Consensus size: 45
18902278 ATCAAACGGT
*
18902288 TAAGACAATAGTTGAAAGACACTATGGCACTATACC-AGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGA-AAATGAA
* * *
18902333 TAAGACCATAGTTGAAAGACACTATAGAAATATACCGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATGAA
* * *
18902378 TAAGACCATAGTTGAAAGGCATTATGGCACTATACCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATGAA
* * * * *
18902423 TAAGATCATAGATGAATGACACTATGGCACTACATCGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATGAA
18902468 TAAGACCATAGTTGAAAGACACTATGGCACTATAC
1 TAAGACCATAGTTGAAAGACACTATGGCACTATAC
18902503 TTGTAACAGC
Statistics
Matches: 146, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
45 145 0.99
46 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATGAA
Found at i:18903381 original size:35 final size:35
Alignment explanation
Indices: 18903342--18903432 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
18903332 GGACTAGCTT
18903342 TTATGAGCATTGATGTGATTT-GGAGGGATTGGCTC
1 TTATGAGCATTGATGTG-TTTCGGAGGGATTGGCTC
* *
18903377 TTATGAGCATTGGTGTGTTTCGGATGGATTGGCTC
1 TTATGAGCATTGATGTGTTTCGGAGGGATTGGCTC
** *
18903412 TTACAAGCATCTGGTGTGTTT
1 TTATGAGCAT-TGATGTGTTT
18903433 GGGTGCCTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 3 0.06
35 37 0.74
36 10 0.20
ACGTcount: A:0.18, C:0.11, G:0.32, T:0.40
Consensus pattern (35 bp):
TTATGAGCATTGATGTGTTTCGGAGGGATTGGCTC
Found at i:18909191 original size:21 final size:21
Alignment explanation
Indices: 18909145--18909192 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
18909135 GTGACAGGGG
18909145 TACACGACTGTGTGGCTAAGA
1 TACACGACTGTGTGGCTAAGA
* * *
18909166 GACACGACCT-TGTGGTTGAGA
1 TACACGA-CTGTGTGGCTAAGA
18909187 TACACG
1 TACACG
18909193 GTCGTATGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (21 bp):
TACACGACTGTGTGGCTAAGA
Found at i:18912800 original size:21 final size:21
Alignment explanation
Indices: 18912753--18912801 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18912743 TGGTACACAT
* *
18912753 TCGTATGGCTGAGAGACATGG
1 TCGTGTGGCTGAGAGACACGG
*
18912774 TCGTGTGGCTGAGATACACGG
1 TCGTGTGGCTGAGAGACACGG
*
18912795 TGGTGTG
1 TCGTGTG
18912802 ACCAAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.41, T:0.27
Consensus pattern (21 bp):
TCGTGTGGCTGAGAGACACGG
Found at i:18920267 original size:14 final size:15
Alignment explanation
Indices: 18920242--18920271 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18920232 TTGAAATGTT
18920242 TTATTGATTTTTGAA
1 TTATTGATTTTTGAA
18920257 TTATT-ATTTTTGAA
1 TTATTGATTTTTGAA
18920271 T
1 T
18920272 ACTTATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (15 bp):
TTATTGATTTTTGAA
Found at i:18921260 original size:18 final size:20
Alignment explanation
Indices: 18921225--18921265 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
18921215 ACCATGATTT
18921225 GTTAGATAATGATGTGAT-G
1 GTTAGATAATGATGTGATAG
* *
18921244 GTTAGA-AATGTTTTGATAG
1 GTTAGATAATGATGTGATAG
18921263 GTT
1 GTT
18921266 TATTACTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (20 bp):
GTTAGATAATGATGTGATAG
Found at i:18922720 original size:17 final size:18
Alignment explanation
Indices: 18922688--18922722 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
18922678 ATCAAATGAA
18922688 AAAAATGGATAGAAATGGT
1 AAAAATGGA-AGAAATGGT
18922707 AAAAATGG-AGAAATGG
1 AAAAATGGAAGAAATGG
18922723 GAAACATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (18 bp):
AAAAATGGAAGAAATGGT
Found at i:18926556 original size:34 final size:34
Alignment explanation
Indices: 18926518--18926592 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
18926508 TTACTGTGTT
* *
18926518 ATTTGGTATGATGAATGGATC-GGCTCATACTAGC
1 ATTTGGTATGATGAATGG-TCTGGCGCATACGAGC
* * *
18926552 ATTTGGTGTGCTGGATGGTCTGGCGCATACGAGC
1 ATTTGGTATGATGAATGGTCTGGCGCATACGAGC
18926586 ATTTGGT
1 ATTTGGT
18926593 GTGCTGGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.06
34 33 0.94
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.33
Consensus pattern (34 bp):
ATTTGGTATGATGAATGGTCTGGCGCATACGAGC
Found at i:18936549 original size:20 final size:20
Alignment explanation
Indices: 18936523--18937731 Score: 2222
Period size: 20 Copynumber: 60.5 Consensus size: 20
18936513 TATGTGATAG
18936523 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18936543 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936563 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936583 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936603 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936623 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936643 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936663 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936683 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936703 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936723 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936743 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936763 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936783 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936803 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936823 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936843 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936863 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936883 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936903 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936923 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936943 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936963 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18936983 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937003 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937023 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937043 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937063 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937083 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937103 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937123 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937143 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937163 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937183 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937203 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937223 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937243 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937263 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937283 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937303 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937323 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937343 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937363 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937383 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937403 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937423 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
18937443 ATATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
* * * *
18937463 GTATGTATGCATGCATGGAT
1 ATATGTATGTATGTATGTAT
* * * *
18937483 GTATGCATGCATGCATG-AT
1 ATATGTATGTATGTATGTAT
*
18937502 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937522 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937542 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937562 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937582 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937602 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937622 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937642 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937662 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937682 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937702 GTATGTATGTATGTATGTAT
1 ATATGTATGTATGTATGTAT
*
18937722 GTATGTATGT
1 ATATGTATGT
18937732 TGAGCATGTT
Statistics
Matches: 1178, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
19 16 0.01
20 1162 0.99
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.49
Consensus pattern (20 bp):
ATATGTATGTATGTATGTAT
Found at i:18938536 original size:18 final size:18
Alignment explanation
Indices: 18938496--18938562 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
18938486 TTTCACGATA
*
18938496 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAATG
*
18938514 TATAACGTTTTGAAAGA-G
1 AATAACGTTTTGAAA-ATG
* *
18938532 AATAAC-TTATGAATATG
1 AATAACGTTTTGAAAATG
*
18938549 AATCACG-TTTGAAA
1 AATAACGTTTTGAAA
18938563 TTGATCAACA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.03
17 17 0.45
18 19 0.50
19 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.34
Consensus pattern (18 bp):
AATAACGTTTTGAAAATG
Found at i:18941413 original size:20 final size:20
Alignment explanation
Indices: 18941368--18941414 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
18941358 GCTTGTATAG
* *
18941368 GATTGCACTTTGGTGCCTCT
1 GATTGCACTTCGATGCCTCT
18941388 -ATTTGCACTTCGATGCCTCT
1 GA-TTGCACTTCGATGCCTCT
18941408 GATTGCA
1 GATTGCA
18941415 TATTTGTGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (20 bp):
GATTGCACTTCGATGCCTCT
Found at i:18942096 original size:20 final size:21
Alignment explanation
Indices: 18942071--18942113 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
18942061 GATTGTCAGG
18942071 TTTAGAAAATTTAATCCT-TT
1 TTTAGAAAATTTAATCCTATT
18942091 TTTAGAAAATTTAATCCTATT
1 TTTAGAAAATTTAATCCTATT
18942112 TT
1 TT
18942114 CATTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTAGAAAATTTAATCCTATT
Found at i:18945832 original size:51 final size:51
Alignment explanation
Indices: 18945774--18945875 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
18945764 ACGTCGGTTG
* *
18945774 ACAATGAGTCACGTTGCGACATCAAGTGGCCTGAGGTCACGACGTGACATA
1 ACAATGAGTCACGTTACGACATCAAGTGGCCTAAGGTCACGACGTGACATA
**
18945825 ACAATGAGTCACGTTACGACATTGAGTGGCCTAAGGTCACGACGTGACATA
1 ACAATGAGTCACGTTACGACATCAAGTGGCCTAAGGTCACGACGTGACATA
18945876 CTTTTATGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (51 bp):
ACAATGAGTCACGTTACGACATCAAGTGGCCTAAGGTCACGACGTGACATA
Found at i:18948917 original size:20 final size:20
Alignment explanation
Indices: 18948889--18948930 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
18948879 GACTCATTCG
18948889 CATTAATATTTTCATCAAGT
1 CATTAATATTTTCATCAAGT
*
18948909 CATTCATATTTTCATCAAGT
1 CATTAATATTTTCATCAAGT
18948929 CA
1 CA
18948931 AAATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (20 bp):
CATTAATATTTTCATCAAGT
Found at i:18951902 original size:20 final size:20
Alignment explanation
Indices: 18951877--18951917 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18951867 CCTTCCTTCG
18951877 TGCTGCCAGATACAGAATAT
1 TGCTGCCAGATACAGAATAT
*
18951897 TGCTGCCTGATACAGAATAT
1 TGCTGCCAGATACAGAATAT
18951917 T
1 T
18951918 ATGGTCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (20 bp):
TGCTGCCAGATACAGAATAT
Found at i:18952127 original size:36 final size:36
Alignment explanation
Indices: 18952070--18952160 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
18952060 ATTTTCTGTA
*
18952070 GGCATGCTTT-ACATGCAAATCAAAACCAGTATAGT
1 GGCATGCTTTAACATGCAAATCAAAACCAGTATAAT
* * *
18952105 GGCATGCTTTAACATGCGAATCAGAATCAGTATAAT
1 GGCATGCTTTAACATGCAAATCAAAACCAGTATAAT
18952141 GGCATGC-TTAACATGCAAAT
1 GGCATGCTTTAACATGCAAAT
18952161 TAGAATATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 22 0.44
36 28 0.56
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (36 bp):
GGCATGCTTTAACATGCAAATCAAAACCAGTATAAT
Found at i:18955326 original size:22 final size:22
Alignment explanation
Indices: 18955298--18955343 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18955288 TCAATTATCC
*
18955298 ATAATAATAATAAACAAATAAA
1 ATAATAATAATAAACAAACAAA
* *
18955320 ATAATAATGATAACCAAACAAA
1 ATAATAATAATAAACAAACAAA
18955342 AT
1 AT
18955344 TCGAAACCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAATAATAATAAACAAACAAA
Found at i:18963275 original size:23 final size:23
Alignment explanation
Indices: 18963243--18963320 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
18963233 TTCTCTTTTC
18963243 TTTTTC-TATATTTGATTCTCTA
1 TTTTTCATATATTTGATTCTCTA
18963265 TTTTTCATATATGTT-ATTCTCT-
1 TTTTTCATATAT-TTGATTCTCTA
* *
18963287 TTCCTTTCCTATATTTGATTATCTA
1 TT--TTTCATATATTTGATTCTCTA
*
18963312 TTTTCCATA
1 TTTTTCATA
18963321 AAATATTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 8 0.17
23 19 0.41
24 17 0.37
25 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTTCATATATTTGATTCTCTA
Found at i:18963302 original size:47 final size:48
Alignment explanation
Indices: 18963218--18963320 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 48
18963208 AGAATACATA
* * * *
18963218 TTTCCATATCTGTTATTCTCTTTTCTTTTTCTATATTTGATTCTCTAT
1 TTTCCATATATGTTATTCTCTTTTCCTTTCCTATATTTGATTATCTAT
*
18963266 TTTTCATATATGTTATTCTC-TTTCCTTTCCTATATTTGATTATCTAT
1 TTTCCATATATGTTATTCTCTTTTCCTTTCCTATATTTGATTATCTAT
18963313 TTTCCATA
1 TTTCCATA
18963321 AAATATTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 31 0.63
48 18 0.37
ACGTcount: A:0.17, C:0.18, G:0.04, T:0.60
Consensus pattern (48 bp):
TTTCCATATATGTTATTCTCTTTTCCTTTCCTATATTTGATTATCTAT
Found at i:18966335 original size:300 final size:300
Alignment explanation
Indices: 18965793--18966393 Score: 1202
Period size: 300 Copynumber: 2.0 Consensus size: 300
18965783 CTATCAAGGT
18965793 CACCAGCAAAATCAGCATCAACATACCCAATAAATCCATCACTAGTTCTTCCAAACTATAACCAA
1 CACCAGCAAAATCAGCATCAACATACCCAATAAATCCATCACTAGTTCTTCCAAACTATAACCAA
18965858 ACATCAGTAGTACCTCTTAAGTATCTTAAAATCCATTGAACTATTTTCCAATGTTCTTTACCAGG
66 ACATCAGTAGTACCTCTTAAGTATCTTAAAATCCATTGAACTATTTTCCAATGTTCTTTACCAGG
18965923 ATTCACCATGTATCTGCTAATTGCACTGACTACATAGGATAAATCTGGCCGTGAAAAAACCATAG
131 ATTCACCATGTATCTGCTAATTGCACTGACTACATAGGATAAATCTGGCCGTGAAAAAACCATAG
18965988 CTTACATGAGAGATCCCACTGCACTAGAGTATGGAACATATGACATTTACTCAATCTCATCATTT
196 CTTACATGAGAGATCCCACTGCACTAGAGTATGGAACATATGACATTTACTCAATCTCATCATTT
18966053 AATTATGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTG
261 AATTATGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTG
18966093 CACCAGCAAAATCAGCATCAACATACCCAATAAATCCATCACTAGTTCTTCCAAACTATAACCAA
1 CACCAGCAAAATCAGCATCAACATACCCAATAAATCCATCACTAGTTCTTCCAAACTATAACCAA
18966158 ACATCAGTAGTACCTCTTAAGTATCTTAAAATCCATTGAACTATTTTCCAATGTTCTTTACCAGG
66 ACATCAGTAGTACCTCTTAAGTATCTTAAAATCCATTGAACTATTTTCCAATGTTCTTTACCAGG
18966223 ATTCACCATGTATCTGCTAATTGCACTGACTACATAGGATAAATCTGGCCGTGAAAAAACCATAG
131 ATTCACCATGTATCTGCTAATTGCACTGACTACATAGGATAAATCTGGCCGTGAAAAAACCATAG
18966288 CTTACATGAGAGATCCCACTGCACTAGAGTATGGAACATATGACATTTACTCAATCTCATCATTT
196 CTTACATGAGAGATCCCACTGCACTAGAGTATGGAACATATGACATTTACTCAATCTCATCATTT
18966353 AATTATGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTG
261 AATTATGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTG
18966393 C
1 C
18966394 TAAAGTAGTA
Statistics
Matches: 301, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 301 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (300 bp):
CACCAGCAAAATCAGCATCAACATACCCAATAAATCCATCACTAGTTCTTCCAAACTATAACCAA
ACATCAGTAGTACCTCTTAAGTATCTTAAAATCCATTGAACTATTTTCCAATGTTCTTTACCAGG
ATTCACCATGTATCTGCTAATTGCACTGACTACATAGGATAAATCTGGCCGTGAAAAAACCATAG
CTTACATGAGAGATCCCACTGCACTAGAGTATGGAACATATGACATTTACTCAATCTCATCATTT
AATTATGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTG
Found at i:18975578 original size:28 final size:27
Alignment explanation
Indices: 18975489--18975579 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
18975479 AGGGTTGGTG
* **
18975489 AATTTTTTGAAGCAAAGAGAGTTTTTGA
1 AATTTTTTGAAG-AAATAGAGTTAATGA
* ** *
18975517 AATTTTTTGAATGAAATAGGGTTCGTCA
1 AATTTTTTGAA-GAAATAGAGTTAATGA
*
18975545 ATTTTTTTGAACGAAATAGAGTTAATGA
1 AATTTTTTGAA-GAAATAGAGTTAATGA
18975573 AATTTTT
1 AATTTTT
18975580 AAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 49 0.98
29 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (27 bp):
AATTTTTTGAAGAAATAGAGTTAATGA
Found at i:18977905 original size:21 final size:22
Alignment explanation
Indices: 18977863--18977905 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18977853 TAAACGAAGT
* *
18977863 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
18977885 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
18977906 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:18984123 original size:14 final size:14
Alignment explanation
Indices: 18984104--18984130 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18984094 AGCTAAATGG
18984104 AATATATATGCATT
1 AATATATATGCATT
18984118 AATATATATGCAT
1 AATATATATGCAT
18984131 GACTTAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
AATATATATGCATT
Found at i:18984187 original size:56 final size:54
Alignment explanation
Indices: 18984064--18984220 Score: 218
Period size: 48 Copynumber: 3.0 Consensus size: 54
18984054 TTTTTATAAT
18984064 ATATATAATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGC----
1 ATATAT-ATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTA
18984115 AT-TA-ATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTA
1 ATATATATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTA
** *
18984167 ATATATATATATATGCGCATGACTTAAATGAAGCTAAACAGTATATATATGCAT
1 ATATATATATATAT--GCATGACTTAAATGAAGCTAAATGGAATATATATGCAT
18984221 GACTTAAATG
Statistics
Matches: 95, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
48 44 0.46
50 2 0.02
51 2 0.02
52 2 0.02
53 2 0.02
54 8 0.08
56 35 0.37
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (54 bp):
ATATATATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTA
Found at i:18984221 original size:34 final size:35
Alignment explanation
Indices: 18984172--18984239 Score: 120
Period size: 34 Copynumber: 1.9 Consensus size: 35
18984162 CATTAATATA
18984172 TATATATATGCGCATGACTTAAATGAAGCTAAACAG
1 TATATATAT-CGCATGACTTAAATGAAGCTAAACAG
18984208 TATATATAT-GCATGACTTAAATGAAGCTAAAC
1 TATATATATCGCATGACTTAAATGAAGCTAAAC
18984240 CTGCTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 23 0.72
36 9 0.28
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (35 bp):
TATATATATCGCATGACTTAAATGAAGCTAAACAG
Found at i:18984289 original size:85 final size:88
Alignment explanation
Indices: 18984119--18984290 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 88
18984109 ATATGCATTA
*
18984119 ATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTAATATATATATATATGCG
1 ATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATG-AGTAATATATATATATAT-CG
*
18984184 CATGACTTAAATGAAGCTAAACAGT
64 CATGACTTAAATGAAACTAAACAGT
*
18984209 ATATATATGCATGACTTAAATGAAGCTAAACCTGCTAATA-A-A-G-GT-ATATATATATATAT-
1 ATATATATGCATGACTTAAATGAAGCTAAA--TG-GAATATATATGAGTAATATATATATATATC
18984268 GCATGACTTAAATGAAACTAAAC
63 GCATGACTTAAATGAAACTAAAC
18984291 CTGCTAATAA
Statistics
Matches: 76, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
85 22 0.29
87 14 0.18
88 1 0.01
90 31 0.41
91 1 0.01
92 3 0.04
93 4 0.05
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (88 bp):
ATATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGAGTAATATATATATATATCGCA
TGACTTAAATGAAACTAAACAGT
Found at i:18984674 original size:21 final size:22
Alignment explanation
Indices: 18984648--18984702 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
18984638 ACAACTGATG
18984648 GTGGTTGTGGCCTA-TGGAACC
1 GTGGTTGTGGCCTAGTGGAACC
18984669 GTGGTTGTGGCC-AGTGGAACC
1 GTGGTTGTGGCCTAGTGGAACC
*
18984690 GTGGTCGTGGCCT
1 GTGGTTGTGGCCT
18984703 CGTGAGACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.11, C:0.20, G:0.42, T:0.27
Consensus pattern (22 bp):
GTGGTTGTGGCCTAGTGGAACC
Found at i:18986793 original size:14 final size:14
Alignment explanation
Indices: 18986767--18986807 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
18986757 TTTACAGATA
18986767 CAGATA-ACAGAAT
1 CAGATATACAGAAT
*
18986780 CAGATATGCAGAAT
1 CAGATATACAGAAT
18986794 -AGATATACAGAAT
1 CAGATATACAGAAT
18986807 C
1 C
18986808 CTAGCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:18987199 original size:32 final size:32
Alignment explanation
Indices: 18987158--18987229 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
18987148 AGCCCGTGTA
** *
18987158 GCCCACACGCCCAGA-TTGGCCTTGCCCATTTG
1 GCCCACACGCCCA-ACTTGGCCTACCCCATGTG
*
18987190 GCCCACACGCCCAACTTGGCCTACCCCGTGTG
1 GCCCACACGCCCAACTTGGCCTACCCCATGTG
18987222 GCCCACAC
1 GCCCACAC
18987230 AGCCACACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.17
Consensus pattern (32 bp):
GCCCACACGCCCAACTTGGCCTACCCCATGTG
Found at i:18996063 original size:16 final size:17
Alignment explanation
Indices: 18996027--18996064 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18996017 ACTATCTTAA
*
18996027 TATTTAATATTTATGAT
1 TATTTAATATATATGAT
*
18996044 TATTTAA-ATATATTAT
1 TATTTAATATATATGAT
18996060 TATTT
1 TATTT
18996065 TATTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTAATATATATGAT
Found at i:18996130 original size:27 final size:27
Alignment explanation
Indices: 18996107--18996162 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
18996097 AATATATTTA
* * *
18996107 TATTTTCATTATATTTTATGATATGTT
1 TATTTTAAATATATTTTATAATATGTT
* *
18996134 TATTTTAAATGTATTTTATAATATATT
1 TATTTTAAATATATTTTATAATATGTT
18996161 TA
1 TA
18996163 AAATAAGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTAAATATATTTTATAATATGTT
Found at i:19002599 original size:10 final size:10
Alignment explanation
Indices: 19002584--19002616 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19002574 TATACTTTTG
*
19002584 AATTTTTTAA
1 AATTTTTAAA
19002594 AATTTTTAAA
1 AATTTTTAAA
19002604 AA-TTTTAAA
1 AATTTTTAAA
19002613 AATT
1 AATT
19002617 GAATTATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:19004469 original size:36 final size:36
Alignment explanation
Indices: 19004394--19004471 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
19004384 TTCTCTTTCT
* *
19004394 TTTCTTCTCTCATCCCTCTATCTTTCTCCCATATTTC
1 TTTC-TCTCTCATCCCTCTATATTTCTCCCATATCTC
* **
19004431 TTTCTCTCTCATCCCTCTATATTTTTCTTATATCTC
1 TTTCTCTCTCATCCCTCTATATTTCTCCCATATCTC
19004467 TTTCT
1 TTTCT
19004472 TCCTACTCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (36 bp):
TTTCTCTCTCATCCCTCTATATTTCTCCCATATCTC
Found at i:19018590 original size:15 final size:16
Alignment explanation
Indices: 19018558--19018590 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19018548 AAATTTGCAC
19018558 TTGGAAGGGTTAAAGG
1 TTGGAAGGGTTAAAGG
19018574 TTGGAAGGGTT-AAGG
1 TTGGAAGGGTTAAAGG
19018589 TT
1 TT
19018591 ATGCCCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.30
Consensus pattern (16 bp):
TTGGAAGGGTTAAAGG
Found at i:19025700 original size:10 final size:10
Alignment explanation
Indices: 19025685--19025709 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19025675 GGGCATTTGA
19025685 TTTTTTATTT
1 TTTTTTATTT
19025695 TTTTTTATTT
1 TTTTTTATTT
19025705 TTTTT
1 TTTTT
19025710 CTTTCACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:19026114 original size:3 final size:3
Alignment explanation
Indices: 19026100--19026167 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
19026090 ACTTTTTTCA
* ** *
19026100 ATT ATT -TT ATT ATT ATT TTT ATT ATT A-T ACC ATT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
19026146 A-T ATT ACTT ACT ATC ATT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT A
19026168 CTGCCACATT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:19030146 original size:20 final size:20
Alignment explanation
Indices: 19030121--19030160 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19030111 TTCATCTCAT
19030121 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
19030141 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
19030161 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:19036840 original size:44 final size:44
Alignment explanation
Indices: 19036751--19037117 Score: 410
Period size: 44 Copynumber: 8.2 Consensus size: 44
19036741 TCATCGCCAT
** * * * *
19036751 ATCTTGTCTTCCCATACTGGTGGCGAAGTACATCGAAGAAAACAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCAAAGAAAACAG
* *
19036796 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCAAAGAAAACAG
* ** * *
19036840 ATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCAAAGAAAACAG
* *
19036885 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCAAAGAAAACAG
* ** * *
19036929 ATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCAAAGAAAACAG
* *
19036974 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCAAAGAAAACAG
* ** * * **
19037018 ATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAG
1 ATCTTGTCTTCATATACTGG-CGTGAAGTAGATCAAAGAAAACAG
* * *
19037063 ATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGACAGCAG
1 ATCTTGTCTTCATATACTGGCGTGAAGTAGATCAAAGAAAACAG
19037107 ATCTTGTCTTC
1 ATCTTGTCTTC
19037118 CCATATCGGT
Statistics
Matches: 266, Mismatches: 53, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
44 140 0.53
45 126 0.47
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
ATCTTGTCTTCATATACTGGCGTGAAGTAGATCAAAGAAAACAG
Found at i:19036905 original size:89 final size:89
Alignment explanation
Indices: 19036754--19037145 Score: 669
Period size: 89 Copynumber: 4.4 Consensus size: 89
19036744 TCGCCATATC
* *
19036754 TTGTCTTCCCATACTGGTGGCGAAGTACATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
19036819 GAAGTAGATCAAAGATAACAGATT
66 GAAGTAGATCAAAGATAACAGATT
19036843 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
19036908 GAAGTAGATCAAAGATAACAGATT
66 GAAGTAGATCAAAGATAACAGATT
19036932 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
19036997 GAAGTAGATCAAAGATAACAGATT
66 GAAGTAGATCAAAGATAACAGATT
** * *
19037021 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATATATTGGCGT
1 TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * *
19037086 GAAGTAGATCAAAGACAGCAGATC
66 GAAGTAGATCAAAGATAACAGATT
**
19037110 TTGTCTTCCCATA-TCGGTGGCAAAGTAGATCGAAGA
1 TTGTCTTCCCATACT-GGTGGTGAAGTAGATCGAAGA
19037146 TCGCATCTAG
Statistics
Matches: 291, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
88 1 0.00
89 290 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
TTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
GAAGTAGATCAAAGATAACAGATT
Found at i:19037264 original size:45 final size:44
Alignment explanation
Indices: 19037154--19037312 Score: 141
Period size: 44 Copynumber: 3.6 Consensus size: 44
19037144 GATCGCATCT
* *
19037154 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAG-AATCA
19037198 AGTCTTATC-CTCCTGAAGTTGCAGTGAAGCAGACTAAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGAAGCAGACTAAAGAAT--C-A
* * *
19037244 A-TCTTATCTCCCTGAAGTTGCAGT-AAGGCATACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAA-GCAGACTAAAGAATCA
* * *
19037287 AATCATATCTCCTTGACA-TTGCAGTG
1 AGTCTTATCTCCCTGA-AGTTGCAGTG
19037313 GAGTAGATTG
Statistics
Matches: 97, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
43 5 0.05
44 53 0.55
45 35 0.36
46 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGAATCA
Found at i:19038549 original size:3 final size:3
Alignment explanation
Indices: 19038537--19038604 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
19038527 ATTTTTTTCA
* ** *
19038537 ATT ATT -TT ATT ATT TTT ATT ATT ATT A-T ACC ATT ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
19038583 A-T ATT ACTT ACT ATC ATT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT A
19038605 CTGCCACATT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:19038953 original size:6 final size:6
Alignment explanation
Indices: 19038942--19038968 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19038932 TTGTAAATAT
19038942 ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATA
19038969 CTTTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:19041380 original size:20 final size:20
Alignment explanation
Indices: 19041355--19041395 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
19041345 GCAAATGTTC
19041355 TTTCATTCTTT-ACGATTTTT
1 TTTCATTCTTTCA-GATTTTT
19041375 TTTCATTCTTTCAGATTTTT
1 TTTCATTCTTTCAGATTTTT
19041395 T
1 T
19041396 CTCCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATTCTTTCAGATTTTT
Found at i:19042745 original size:13 final size:13
Alignment explanation
Indices: 19042727--19042751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19042717 TAAATCAATT
19042727 TCTTTGTTATCCA
1 TCTTTGTTATCCA
19042740 TCTTTGTTATCC
1 TCTTTGTTATCC
19042752 TCGACAATTT
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:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:19043779 original size:88 final size:88
Alignment explanation
Indices: 19043686--19044035 Score: 227
Period size: 88 Copynumber: 4.0 Consensus size: 88
19043676 ATCAAGGATG
* *
19043686 ACAGATTTTACCTCTCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTGG
1 ACAGATTTTACCTCCCTGAGG-CAGCAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCTGG
*
19043749 GCAGCAGTGGAATAGATTGAAGATT
65 GCAGCAGTGGAATAGATCGAAGA-T
* * * * * *** * * * *
19043774 ACAGATCTTATCTCCCT-AGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAG
1 ACAGATTTTACCTCCCTGAGGCAGCAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCTG-G
* * * *
19043838 GTTA-CAGTGGAGTACATTGAAG--
65 G-CAGCAGTGGAATAGATCGAAGAT
* * * * * * *
19043860 CCAGTAATTCTATCTCCCTG-GGCAGCAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCC
1 ACAG--ATTTTACCTCCCTGAGGCAGCAGTGGAGTACATTGAAGCCAGTACA-TTC-TATCTCCC
* * *
19043922 TAGGCAGTAGTGGAGTAGATCGAAGAT
62 TGGGCAGCAGTGGAATAGATCGAAGAT
* *
19043949 GGCAGATTTTACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTG
1 -ACAGATTTTACCTCCCTGAGG-CAGCAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCTG
* * *
19044012 GTCGGCAGTGGAATCGATCGAAGA
64 GGCAGCAGTGGAATAGATCGAAGA
19044036 AAGCAAATCT
Statistics
Matches: 197, Mismatches: 48, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
86 7 0.04
87 38 0.19
88 105 0.53
89 38 0.19
90 6 0.03
91 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
ACAGATTTTACCTCCCTGAGGCAGCAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCTGGG
CAGCAGTGGAATAGATCGAAGAT
Found at i:19043796 original size:44 final size:44
Alignment explanation
Indices: 19043623--19043991 Score: 245
Period size: 44 Copynumber: 8.4 Consensus size: 44
19043613 ATGGGCAACC
* * *
19043623 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGCA
* * * * * * * *
19043667 GTAGAGCAGA-TCAAGGATGACAGATTTTACCTCTCTGAGGTTA-CA
1 GTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCT-AGG-CAGCA
* * * *
19043712 GTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCA
1 GTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTAGGCAGCA
* *
19043755 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGCA
* ** * * *
19043799 GTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTA-CA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT-AGG-CAGCA
* * * *
19043844 GTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCA
1 GTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTAGGCAGCA
* *
19043887 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGCA
* ** * * *
19043931 GTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTA-CA
1 GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT-AGG-CAGCA
*
19043976 GTGGAGTACATTGAAG
1 GTGGAGTAGATTGAAG
19043992 CCAGTAATTC
Statistics
Matches: 242, Mismatches: 63, Indels: 39
0.70 0.18 0.11
Matches are distributed among these distances:
41 6 0.02
42 4 0.02
43 43 0.18
44 129 0.53
45 49 0.20
46 8 0.03
47 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
GTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGCA
Found at i:19044074 original size:132 final size:132
Alignment explanation
Indices: 19043550--19044035 Score: 839
Period size: 132 Copynumber: 3.7 Consensus size: 132
19043540 GGAGCAGGTT
* *
19043550 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCAT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * *
19043615 GGGCAACCGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
19043679 AA
131 AA
* *
19043681 GGATGACAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
1 -GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
19043746 TGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATC
65 TGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATC
19043811 GAA
130 GAA
19043814 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
19043879 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
19043944 AA
131 AA
19043946 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
19044011 GGTCGGCAGTGGAATCGATCGAAGA
66 GGGCAGCAGTGGAATAGATTGAAGA
19044036 AAGCAAATCT
Statistics
Matches: 338, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 336 0.99
133 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
AA
Found at i:19047270 original size:11 final size:11
Alignment explanation
Indices: 19047200--19047258 Score: 118
Period size: 11 Copynumber: 5.4 Consensus size: 11
19047190 TATTTTTTAA
19047200 TTTTAAAATAT
1 TTTTAAAATAT
19047211 TTTTAAAATAT
1 TTTTAAAATAT
19047222 TTTTAAAATAT
1 TTTTAAAATAT
19047233 TTTTAAAATAT
1 TTTTAAAATAT
19047244 TTTTAAAATAT
1 TTTTAAAATAT
19047255 TTTT
1 TTTT
19047259 TTTTAAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 48 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:19055030 original size:51 final size:51
Alignment explanation
Indices: 19054970--19055073 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
19054960 TTATTATGAC
* * * *
19054970 ATAGAAAACTAAGATATGCTAGTATGATCATATTGCATAAACTAGTTAAAA
1 ATAGAAAACTAAGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
*
19055021 ATAGAAAACTAGGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
1 ATAGAAAACTAAGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
19055072 AT
1 AT
19055074 GATTTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (51 bp):
ATAGAAAACTAAGACATGATAGCATGATCATATTGCATAAACTAGCTAAAA
Found at i:19058117 original size:21 final size:21
Alignment explanation
Indices: 19058102--19058148 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
19058092 TAATTTATTT
19058102 ATAC-TTTTTAAAAATTATCG
1 ATACTTTTTTAAAAATTATCG
* *
19058122 ATACTTTTTTAAAAAGTATCA
1 ATACTTTTTTAAAAATTATCG
19058143 ATACTT
1 ATACTT
19058149 GGGGGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (21 bp):
ATACTTTTTTAAAAATTATCG
Found at i:19059714 original size:23 final size:23
Alignment explanation
Indices: 19059652--19059724 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
19059642 TTTTATATGC
*
19059652 GCAAGTGATAGTGGCACTATAGT
1 GCAAGTGATAGTGGCATTATAGT
* *
19059675 TCAAGTG-TCTGTGGCATTATAGT
1 GCAAGTGAT-AGTGGCATTATAGT
* * *
19059698 GCAAGTGATAGCGGCATTTTGGT
1 GCAAGTGATAGTGGCATTATAGT
19059721 GCAA
1 GCAA
19059725 ATTATTGACT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTATAGT
Found at i:19070311 original size:70 final size:70
Alignment explanation
Indices: 19070150--19070311 Score: 188
Period size: 70 Copynumber: 2.3 Consensus size: 70
19070140 ACACTTTTGC
* *
19070150 GTGACCCACACGGGCTACCACATGGCCTACCACATGACTGTGTGACCCACACAAGCTACAACACG
1 GTGACCCACACGAGCTACCACATGGCCTACCACACGACTGTGTGACCCACACAAGCTACAACACG
19070215 ATCGT
66 ATCGT
* * * * *
19070220 GTGGCTCACTC-AGTTTACCACATGGCCTACCACACGA-TCGTGTGACCCACACAA-CTTACTAC
1 GTGACCCACACGAG-CTACCACATGGCCTACCACACGACT-GTGTGACCCACACAAGC-TACAAC
19070282 ACGA-CTGT
63 ACGATC-GT
*
19070290 GTGACCCACACGAGCTGCCACA
1 GTGACCCACACGAGCTACCACA
19070312 CGGCTGCGTG
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
69 4 0.05
70 69 0.92
71 2 0.03
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.18
Consensus pattern (70 bp):
GTGACCCACACGAGCTACCACATGGCCTACCACACGACTGTGTGACCCACACAAGCTACAACACG
ATCGT
Found at i:19070312 original size:29 final size:28
Alignment explanation
Indices: 19070249--19070340 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
19070239 ACATGGCCTA
* *
19070249 CCACACGA-TCGTGTGACCCACACAACTTA
1 CCACACGACT-GTGTGACCCACACAGC-TG
*
19070278 CTACACGACTGTGTGACCCACACGAGCTG
1 CCACACGACTGTGTGACCCACAC-AGCTG
* *
19070307 CCACACGGCTGCGTGACCCACACAAGCTG
1 CCACACGACTGTGTGACCCACAC-AGCTG
19070336 CCACA
1 CCACA
19070341 TGACCTATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 51 0.94
30 3 0.06
ACGTcount: A:0.27, C:0.39, G:0.20, T:0.14
Consensus pattern (28 bp):
CCACACGACTGTGTGACCCACACAGCTG
Found at i:19071275 original size:20 final size:20
Alignment explanation
Indices: 19071250--19071289 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
19071240 ACTAATCCTT
19071250 GACAAATATAAAAAATTCTG
1 GACAAATATAAAAAATTCTG
19071270 GACAAATATAAAAAATTCTG
1 GACAAATATAAAAAATTCTG
19071290 CAATTTAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
GACAAATATAAAAAATTCTG
Found at i:19074142 original size:63 final size:64
Alignment explanation
Indices: 19074014--19074148 Score: 161
Period size: 63 Copynumber: 2.1 Consensus size: 64
19074004 TCATGAGGGT
* *
19074014 GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACATAGTCAAGGCACACTGGCGTGTGTCCA
1 GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACAGAGTCAAGGCACACTGGCGTGTGCCCA
* * * *
19074078 GGCCGTGTAACTCACTGTTTAT-GCTTTAGAGTCATACGAG-CAGAGG-ACA-TAGGCGTGTGCC
1 GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACA-GAGTCA-AGGCACACT-GGCGTGTGCC
19074139 CA
63 CA
19074141 GGCCGTGT
1 GGCCGTGT
19074149 GGCATATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 35 0.56
64 26 0.42
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (64 bp):
GGCCGTGTAACTCACTGTTCATCGATTTAGAGCCACAGAGTCAAGGCACACTGGCGTGTGCCCA
Found at i:19079775 original size:87 final size:87
Alignment explanation
Indices: 19079629--19079810 Score: 328
Period size: 87 Copynumber: 2.1 Consensus size: 87
19079619 TCGGAACTCT
19079629 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
1 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
*
19079694 AATAGCCGAGTAAGCTTTGTGC
66 AATAGCCCAGTAAGCTTTGTGC
**
19079716 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCGTGAGCTTAGGATCCAAATTAAGCTGTTG
1 TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
*
19079781 AATTGCCCAGTAAGCTTTGTGC
66 AATAGCCCAGTAAGCTTTGTGC
19079803 TTTAACTC
1 TTTAACTC
19079811 CAATGGTAGA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (87 bp):
TTTAACTCATTGAGTTGGAACATCCGTTTCTCTTTCACGAGCTTAGGATCCAAATTAAGCTGTTG
AATAGCCCAGTAAGCTTTGTGC
Found at i:19091153 original size:8 final size:8
Alignment explanation
Indices: 19091124--19091173 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
19091114 TCATCATTTC
19091124 CTCTTTTT
1 CTCTTTTT
19091132 -TC-TTTT
1 CTCTTTTT
*
19091138 CTTTTTTTT
1 C-TCTTTTT
19091147 CTCTTTTT
1 CTCTTTTT
19091155 C-CTTTGTT
1 CTCTTT-TT
19091163 CTCTTTTT
1 CTCTTTTT
19091171 CTC
1 CTC
19091174 CCCTTTCGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
6 4 0.11
7 6 0.17
8 16 0.46
9 9 0.26
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (8 bp):
CTCTTTTT
Found at i:19099113 original size:23 final size:23
Alignment explanation
Indices: 19099078--19099122 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19099068 AATGACTATA
*
19099078 ATATCCATTTCATTTCCATTTTC
1 ATATCCATTTCATTTCAATTTTC
19099101 ATAT-CATTCTCATTTCAATTTT
1 ATATCCATT-TCATTTCAATTTT
19099123 ATTTCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATCCATTTCATTTCAATTTTC
Found at i:19100508 original size:2 final size:2
Alignment explanation
Indices: 19100503--19100543 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
19100493 GTTAGGACGT
19100503 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
19100544 TGTGTGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19101970 original size:29 final size:28
Alignment explanation
Indices: 19101877--19101971 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 28
19101867 GCCATACGGC
* *
19101877 CTGCCACATGGCCGTGTGACCTACATGGGT
1 CTGCCACATGACTGTGTGACC-ACAT-GGT
* * *
19101907 -TGCCACACGCCTGTGTGACCCACACGGT
1 CTGCCACATGACTGTGTGA-CCACATGGT
** *
19101935 CAACCACATGACTATGTGACTCACATGGT
1 CTGCCACATGACTGTGTGAC-CACATGGT
19101964 CTGCCACA
1 CTGCCACA
19101972 CGATCGTGTG
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
28 4 0.08
29 44 0.88
30 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.21
Consensus pattern (28 bp):
CTGCCACATGACTGTGTGACCACATGGT
Found at i:19102528 original size:24 final size:24
Alignment explanation
Indices: 19102476--19102526 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
19102466 TTATAGGAAT
* *
19102476 AAAA-TAAAAAAGAAACACAAGAA
1 AAAATTAAAAAAGAAAAAAAAGAA
19102499 AAAATTAAAAAAGAAAGAAAAAGAA
1 AAAATTAAAAAAGAAA-AAAAAGAA
19102524 AAA
1 AAA
19102527 TTGTGCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAATTAAAAAAGAAAAAAAAGAA
Found at i:19104039 original size:47 final size:47
Alignment explanation
Indices: 19103953--19104063 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
19103943 ACCATTTGTA
* * * * *
19103953 GACAAGCTACTACATAAATGTCGAAAATGACCACGTAGCATATTGTG
1 GACAAGCCACCACATAAATGTCGAAAAAGACCACATAGCATATTATG
* * *
19104000 GGCAAGTCACCATATAAATGTCGAAAACAG-CCACATAGCATATTATG
1 GACAAGCCACCACATAAATGTCGAAAA-AGACCACATAGCATATTATG
19104047 GACAAGCCACCACATAA
1 GACAAGCCACCACATAA
19104064 TTGCAGATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20
Consensus pattern (47 bp):
GACAAGCCACCACATAAATGTCGAAAAAGACCACATAGCATATTATG
Found at i:19104081 original size:22 final size:22
Alignment explanation
Indices: 19104056--19104106 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
19104046 GGACAAGCCA
19104056 CCACATAATTGCAGATAAACTG
1 CCACATAATTGCAGATAAACTG
19104078 CCACATAATTGCAGATAAACTG
1 CCACATAATTGCAGATAAACTG
19104100 CCACATA
1 CCACATA
19104107 TCTTCCTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (22 bp):
CCACATAATTGCAGATAAACTG
Found at i:19107385 original size:6 final size:6
Alignment explanation
Indices: 19107368--19107417 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
19107358 TAAAGCATAA
*
19107368 CAAAACC CAAAAC CAAAAC CAAAAC CAAAAC CAAATC C-AAAC CTAAAAC
1 CAAAA-C CAAAAC CAAAAC CAAAAC CAAAAC CAAAAC CAAAAC C-AAAAC
19107417 C
1 C
19107418 TTAGTCCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 4 0.10
6 25 0.64
7 10 0.26
ACGTcount: A:0.60, C:0.36, G:0.00, T:0.04
Consensus pattern (6 bp):
CAAAAC
Found at i:19108292 original size:41 final size:41
Alignment explanation
Indices: 19108212--19108292 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
19108202 GGCTTGACGC
*
19108212 ACGACCTCACACATGCCCGTGTGACCCACAAGGGCTGCCAT
1 ACGACCTCACACATGCCCGTGTGACCCACAAGAGCTGCCAT
* * *
19108253 ACGACCTGC-CACATAG-CCGTGTGACCTACACGAGTTGCCA
1 ACGACCT-CACACAT-GCCCGTGTGACCCACAAGAGCTGCCA
19108293 CACGGTCGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (41 bp):
ACGACCTCACACATGCCCGTGTGACCCACAAGAGCTGCCAT
Found at i:19108302 original size:29 final size:29
Alignment explanation
Indices: 19108270--19108337 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
19108260 GCCACATAGC
**
19108270 CGTGTGACCTACACGAGT-TGCCACACGGT
1 CGTGTGACCTACACGA-TCAACCACACGGT
*
19108299 CGTGTGACCCACACGATCAACCACACGGT
1 CGTGTGACCTACACGATCAACCACACGGT
*
19108328 AGTGTGACCT
1 CGTGTGACCT
19108338 GCCATATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (29 bp):
CGTGTGACCTACACGATCAACCACACGGT
Found at i:19109939 original size:19 final size:19
Alignment explanation
Indices: 19109896--19109965 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
19109886 AGAGCAATAC
* *
19109896 TAACTTGTTTTAAAATAGTTT
1 TAACTTGATTGAAAAT-G-TT
19109917 TAACTTGATTGAAAATGTT
1 TAACTTGATTGAAAATGTT
**
19109936 TAACTCAATTGAAACCAT-TT
1 TAACTTGATTGAAA--ATGTT
19109956 TAACTTGATT
1 TAACTTGATT
19109966 TTATCATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 14 0.34
20 11 0.27
21 16 0.39
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (19 bp):
TAACTTGATTGAAAATGTT
Found at i:19117361 original size:11 final size:10
Alignment explanation
Indices: 19117339--19117369 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
19117329 TTTATAATGA
19117339 TTGTTGGCAT
1 TTGTTGGCAT
19117349 TTGTTGAGCAT
1 TTGTTG-GCAT
19117360 TTGTTGGCAT
1 TTGTTGGCAT
19117370 ATATGTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.13, C:0.10, G:0.29, T:0.48
Consensus pattern (10 bp):
TTGTTGGCAT
Found at i:19120030 original size:11 final size:11
Alignment explanation
Indices: 19120014--19120038 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19120004 GGTGCTTCGA
19120014 TTTTCACTCAT
1 TTTTCACTCAT
19120025 TTTTCACTCAT
1 TTTTCACTCAT
19120036 TTT
1 TTT
19120039 GCTCCTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCACTCAT
Found at i:19123709 original size:19 final size:19
Alignment explanation
Indices: 19123687--19123724 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19123677 TCAATCATCC
19123687 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
19123706 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
19123725 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:19131527 original size:34 final size:34
Alignment explanation
Indices: 19131487--19131554 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
19131477 TTTGGTATGA
* *
19131487 TTGGTTGGACAGAGTTGGTGTGTAGCGGATGGGG
1 TTGGTTGGACAGAGTTGATGTGTAGCAGATGGGG
*
19131521 TTGGTTGGACATAGTTGATGTGTAGCAGATGGGG
1 TTGGTTGGACAGAGTTGATGTGTAGCAGATGGGG
19131555 GTAGAATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.06, G:0.46, T:0.31
Consensus pattern (34 bp):
TTGGTTGGACAGAGTTGATGTGTAGCAGATGGGG
Found at i:19134635 original size:31 final size:31
Alignment explanation
Indices: 19134599--19134660 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
19134589 CATTGGCAAC
* * *
19134599 TTAGGTAGGTCATGTGGGGCACACGGGCTGG
1 TTAGGTAGGTCATGTAGGCCACACAGGCTGG
*
19134630 TTAGGTAGGTCGTGTAGGCCACACAGGCTGG
1 TTAGGTAGGTCATGTAGGCCACACAGGCTGG
19134661 CCAATTAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.42, T:0.23
Consensus pattern (31 bp):
TTAGGTAGGTCATGTAGGCCACACAGGCTGG
Found at i:19136509 original size:162 final size:163
Alignment explanation
Indices: 19136316--19136645 Score: 653
Period size: 162 Copynumber: 2.0 Consensus size: 163
19136306 TTAATTTAAT
19136316 ATATATTTTAAAATACTCTCTATATTTCTATAGAGAAAATATATTTTTGTAGCAATTAATCTTAT
1 ATATATTTTAAAATACTCTCTATATTTCTATAGAGAAAATATATTTTTGTAGCAATTAATCTTAT
19136381 GTTGTTATTTGTAAAAAATGATAAAAAAATTGTAAGTGTAAATAATATTTTAAATATAAATTAAT
66 GTTGTTATTTGTAAAAAATGATAAAAAAATTGTAAGTGTAAATAATATTTTAAATATAAATTAAT
19136446 ACATGATTATAAAATGGAAAAAACACAAATACG
131 ACATGATTATAAAATGGAAAAAACACAAATACG
19136479 ATATATTTTAAAA-ACTCTCTATATTTCTATAGAGAAAATATATTTTTGTAGCAATTAATCTTAT
1 ATATATTTTAAAATACTCTCTATATTTCTATAGAGAAAATATATTTTTGTAGCAATTAATCTTAT
19136543 GTTGTTATTTGTAAAAAATGATAAAAAAATTGTAAGTGTAAATAATATTTTAAATATAAATTAAT
66 GTTGTTATTTGTAAAAAATGATAAAAAAATTGTAAGTGTAAATAATATTTTAAATATAAATTAAT
19136608 ACATGATTATAAAATGGAAAAAACACAAATACG
131 ACATGATTATAAAATGGAAAAAACACAAATACG
19136641 ATATA
1 ATATA
19136646 AATGTATAAA
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 154 0.92
163 13 0.08
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (163 bp):
ATATATTTTAAAATACTCTCTATATTTCTATAGAGAAAATATATTTTTGTAGCAATTAATCTTAT
GTTGTTATTTGTAAAAAATGATAAAAAAATTGTAAGTGTAAATAATATTTTAAATATAAATTAAT
ACATGATTATAAAATGGAAAAAACACAAATACG
Found at i:19137330 original size:25 final size:27
Alignment explanation
Indices: 19137297--19137353 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 27
19137287 TAAGTAATAA
19137297 AAATAAATTAAACA-AAATATT-ATTT
1 AAATAAATTAAACATAAATATTAATTT
* * *
19137322 AAATTAATTCAACATAATTATTAGATTT
1 AAATAAATTAAACATAAATATTA-ATTT
19137350 AAAT
1 AAAT
19137354 GTAAGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 12 0.46
26 6 0.23
28 8 0.31
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (27 bp):
AAATAAATTAAACATAAATATTAATTT
Found at i:19147480 original size:122 final size:121
Alignment explanation
Indices: 19147257--19147516 Score: 263
Period size: 122 Copynumber: 2.1 Consensus size: 121
19147247 CTGATATCCT
* * * * * * *
19147257 TAGAGTTCTACCGCTATCTTAAGGTCTTCTATCGCAACAAGTCAAAATAGTAGCCAAGGTTCAAC
1 TAGAGTTCTACCGATACCTTAAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAAC
* * * * **
19147322 GTCTCCCATATTTCTACCGAAACTCTAATGGCTTCTATAGATACGAGTTGAAACCAC
66 ATCTCCCACATTTCTACCGAAACTCTAATGGCTTCTACAGATACCAAATGAAACC-C
* * * *
19147379 TAGAGTTCTACCGATACCTTGAGGACTTCTACCGAAACAAGTCAAGACAGTAGCCAAAGTTTAGC
1 TAGAGTTCTACCGATACCTTAAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAAC
** * * *
19147444 ATCTCTTACACTTT-TACCGATACTCTGATTGG-TTCTACCGATACCAAATGAAACCC
66 ATCTCCCACA-TTTCTACCGAAACTCT-AATGGCTTCTACAGATACCAAATGAAACCC
*
19147500 TCAGATTTCTACCGATA
1 T-AGAGTTCTACCGATA
19147517 TAAGGGAACT
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
121 2 0.02
122 103 0.92
123 7 0.06
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (121 bp):
TAGAGTTCTACCGATACCTTAAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTTCAAC
ATCTCCCACATTTCTACCGAAACTCTAATGGCTTCTACAGATACCAAATGAAACCC
Found at i:19154327 original size:122 final size:122
Alignment explanation
Indices: 19154106--19154327 Score: 277
Period size: 122 Copynumber: 1.8 Consensus size: 122
19154096 CTCAGAGTTT
* * * * * *
19154106 TACCGGTACCTTGAGGTCTTATACCGCAACAAGTCAAAACAGTAGCCAAGGTTCAGCTTCTCCCT
1 TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
* * *
19154171 TATTTCTACTGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
66 CACTTCTACAGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
* * * *
19154228 TACCGATACCTTGAGGACTTCTACCGAAACAAGTTAAGACAATAGCCAAAGTTTAGCATC-CCCT
1 TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
* *
19154292 GCACTTCTACAGATACTCTGATTGG-TTCTATTGATA
66 -CACTTCTACAGAAACTCTGA-TGGCTTCTACTGATA
19154328 CCGAATGAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
121 4 0.05
122 76 0.92
123 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (122 bp):
TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
CACTTCTACAGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
Found at i:19155960 original size:122 final size:122
Alignment explanation
Indices: 19155739--19155960 Score: 277
Period size: 122 Copynumber: 1.8 Consensus size: 122
19155729 CTCAGAGTTT
* * * * * *
19155739 TACCGGTACCTTGAGGTCTTATACCGCAACAAGTCAAAACAGTAGCCAAGGTTCAGCTTCTCCCT
1 TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
* * *
19155804 TATTTCTACTGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
66 CACTTCTACAGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
* * * *
19155861 TACCGATACCTTGAGGACTTCTACCGAAACAAGTTAAGACAATAGCCAAAGTTTAGCATC-CCCT
1 TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
* *
19155925 GCACTTCTACAGATACTCTGATTGG-TTCTATTGATA
66 -CACTTCTACAGAAACTCTGA-TGGCTTCTACTGATA
19155961 CCGAATGAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
121 4 0.05
122 76 0.92
123 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (122 bp):
TACCGATACCTTGAGGACTTATACCGAAACAAGTCAAAACAATAGCCAAAGTTCAGCATCTCCCT
CACTTCTACAGAAACTCTGATGGCTTCTACTGATATGAGTTGAAACCACCAGACCTC
Found at i:19161713 original size:26 final size:26
Alignment explanation
Indices: 19161671--19161730 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
19161661 CCTAAATCCG
*
19161671 AATGTCAAAACCTTATGGTTTCATTAA
1 AATGT-AAAAACTTATGGTTTCATTAA
**
19161698 AATGTAAAAACTTATGGTTTTGTTAA
1 AATGTAAAAACTTATGGTTTCATTAA
19161724 AATGTAA
1 AATGTAA
19161731 CACCTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (26 bp):
AATGTAAAAACTTATGGTTTCATTAA
Found at i:19161833 original size:17 final size:18
Alignment explanation
Indices: 19161808--19161851 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
19161798 AAATGAATAG
19161808 TAATAAAATAGG-AAAAT
1 TAATAAAATAGGCAAAAT
* *
19161825 TAATTAAATTGGCTAAAAT
1 TAATAAAATAGGC-AAAAT
19161844 TAATAAAA
1 TAATAAAA
19161852 AGTTAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (18 bp):
TAATAAAATAGGCAAAAT
Found at i:19165719 original size:42 final size:42
Alignment explanation
Indices: 19165656--19165835 Score: 243
Period size: 42 Copynumber: 4.3 Consensus size: 42
19165646 TCGAAATGAG
* *
19165656 AATGCAGAAGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCA-ATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
19165699 AATGCAATGAAAAGTGAATGGATCTCCACCCCTGGGACTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
19165741 AATGCAATGAAAACTGAATGGACCTCCACATCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
19165783 AATGAAATGAAAAGTAAATGCACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
19165825 AATGTAATGAA
1 AATGCAATGAA
19165836 TGCTTTCCTT
Statistics
Matches: 120, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 114 0.95
43 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:19175611 original size:11 final size:11
Alignment explanation
Indices: 19175595--19175619 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19175585 GGCCATTTTG
19175595 AAGCTTAATTC
1 AAGCTTAATTC
19175606 AAGCTTAATTC
1 AAGCTTAATTC
19175617 AAG
1 AAG
19175620 TACTACAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (11 bp):
AAGCTTAATTC
Found at i:19176391 original size:43 final size:43
Alignment explanation
Indices: 19176328--19176498 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
19176318 CATAGGATTT
* * * *
19176328 TCGATGTGTGTTTTCATGTAAGACCACGTCTGCGACGTTGGCA
1 TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * * *
19176371 TCGATTTGTGTTTACGTGTAAGACCATGTCTGGGACATTTGCA
1 TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * *
19176414 TTG-TATT-TAATT-CGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGAT-TTGTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * *
19176455 TCGATATGTGATTACATATAAGACCACGTCTAGGACGTTGGCA
1 TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
19176498 T
1 T
19176499 TGTACGAGCC
Statistics
Matches: 99, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 26 0.26
42 10 0.10
43 62 0.63
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATTTGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:19181977 original size:23 final size:20
Alignment explanation
Indices: 19181928--19181977 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
19181918 ATGACATTAG
*
19181928 ACAATTAAATAAATTAATGC
1 ACAAATAAATAAATTAATGC
*
19181948 ACGAATAAATAAATCTAATATGC
1 ACAAATAAATAAAT-T-A-ATGC
19181971 ACAAATA
1 ACAAATA
19181978 CTAAAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 1 0.04
22 1 0.04
23 10 0.42
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (20 bp):
ACAAATAAATAAATTAATGC
Found at i:19182555 original size:25 final size:24
Alignment explanation
Indices: 19182510--19182557 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
19182500 GATACCTAAA
19182510 TAATTTACCTTCAATTCCTAAAAT
1 TAATTTACCTTCAATTCCTAAAAT
*
19182534 TAATTCTATCTTCGAATT-CTAAAA
1 TAATT-TACCTTC-AATTCCTAAAA
19182558 AAAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATTTACCTTCAATTCCTAAAAT
Found at i:19183080 original size:27 final size:28
Alignment explanation
Indices: 19183036--19183097 Score: 117
Period size: 27 Copynumber: 2.2 Consensus size: 28
19183026 CCTAAATCCT
19183036 AATGTAAAAACCTTTATGGTTTCATTAA
1 AATGTAAAAACCTTTATGGTTTCATTAA
19183064 AATGTAAAAA-CTTTATGGTTTCATTAA
1 AATGTAAAAACCTTTATGGTTTCATTAA
19183091 AATGTAA
1 AATGTAA
19183098 CACCTACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (28 bp):
AATGTAAAAACCTTTATGGTTTCATTAA
Found at i:19184131 original size:51 final size:52
Alignment explanation
Indices: 19184075--19184173 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
19184065 AAATAGTTGA
19184075 AAAAAATCAAAACTTTATTTTACAAAATCTAAACTTT-TCC-TTTAAAAGGACT
1 AAAAAA-CAAAACTTTATTTTA-AAAATCTAAACTTTCTCCTTTTAAAAGGACT
* *
19184127 AAAAAACAAAATTTTATTTTAAAAATCTAAAGTTTCTCCTTTTAAAA
1 AAAAAACAAAACTTTATTTTAAAAATCTAAACTTTCTCCTTTTAAAA
19184174 AAAAACTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 13 0.30
51 17 0.40
52 13 0.30
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.36
Consensus pattern (52 bp):
AAAAAACAAAACTTTATTTTAAAAATCTAAACTTTCTCCTTTTAAAAGGACT
Found at i:19184553 original size:157 final size:158
Alignment explanation
Indices: 19184356--19184649 Score: 455
Period size: 157 Copynumber: 1.9 Consensus size: 158
19184346 AAAAAAAATA
** * *
19184356 ATTTTTCTTAAAGATCAATTCTTTTATTTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAA
1 ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAA
* *
19184421 AAATTTAAAATTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTTAAAATCTAAAATTTCT
66 AAATTTAAAATTTCCTTAAAAATGACTAAAAAACAGATTTTTATTTTTTAAAATCTAAAATTTCT
19184486 -CTTTTTCTTTTTAAAAAAATAAACATC
131 CCTTTTTCTTTTTAAAAAAATAAACATC
* * *
19184513 ATTTTTCTTAAATATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAGTCAAAACTTTATTTTTA
1 ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAA
* * * * *
19184578 ACATTTAAAGTTTCCTTAAAAATGACTAAAAAACATATTTTTATTTTTTTAAATCTAAACTTTCT
66 AAATTTAAAATTTCCTTAAAAATGACTAAAAAACAGATTTTTATTTTTTAAAATCTAAAATTTCT
19184643 CCTTTTT
131 CCTTTTT
19184650 AAAAAAGAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
157 116 0.95
158 6 0.05
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (158 bp):
ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAA
AAATTTAAAATTTCCTTAAAAATGACTAAAAAACAGATTTTTATTTTTTAAAATCTAAAATTTCT
CCTTTTTCTTTTTAAAAAAATAAACATC
Found at i:19191388 original size:17 final size:18
Alignment explanation
Indices: 19191366--19191400 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19191356 ATTTTGGGTT
19191366 GTGTGGG-CCACATGGGC
1 GTGTGGGCCCACATGGGC
19191383 GTGTGGGCCCACATGGGC
1 GTGTGGGCCCACATGGGC
19191401 ATGCAACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
GTGTGGGCCCACATGGGC
Found at i:19208148 original size:15 final size:15
Alignment explanation
Indices: 19208128--19208156 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19208118 ACCTCTGTCC
19208128 TCGGCTACACTAGCA
1 TCGGCTACACTAGCA
19208143 TCGGCTACACTAGC
1 TCGGCTACACTAGC
19208157 TTTCTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (15 bp):
TCGGCTACACTAGCA
Found at i:19216768 original size:27 final size:27
Alignment explanation
Indices: 19216741--19216957 Score: 182
Period size: 27 Copynumber: 8.0 Consensus size: 27
19216731 GTCATTCTTT
* *
19216741 ATAGATCGCCACAAAGACTTCCTTTTT
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * *
19216768 ATAGATCACCACAGAGGTTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * * * * *
19216795 ATGGATTGCAATAGAGGCTTCATTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
19216822 ATGGATCGCCATAAAGGCTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * ** * *
19216849 ATGGGTTACCACAAAGGCTTCATTTTG
1 ATAGATCGCCACAAAGGCTTCCTTTTC
** * *
19216876 ATAGATTTCCACAAAAGCTTCTTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
19216903 ATAGACCGCCACAAAGGCTTCATTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
19216930 ATAGATTGCCACAAAGACTTCCCTTTTC
1 ATAGATCGCCACAAAGGCTT-CCTTTTC
19216958 TGGCGTGTTC
Statistics
Matches: 152, Mismatches: 37, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 146 0.96
28 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
ATAGATCGCCACAAAGGCTTCCTTTTC
Found at i:19216860 original size:81 final size:81
Alignment explanation
Indices: 19216732--19216950 Score: 213
Period size: 81 Copynumber: 2.7 Consensus size: 81
19216722 GCAAAAAGGG
* * * * * *
19216732 TCATTCTTTATAGATCGCCACAAAGACTTCCTTTTTATAGATCACCACAGAGGTTTCCTTTTCAT
1 TCATT-TTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCAT
* * * *
19216797 GGATTGCAATAGAGGCT
65 AGATTGCAACAAAAGCT
* * * * * *
19216814 TCATTTTCATGGATCGCCATAAAGGCTTCCTTTTCATGGGTTACCACAAAGGCTTCATTTTGATA
1 TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCATA
* *
19216879 GATTTCCACAAAAGCT
66 GATTGCAACAAAAGCT
* * * ** *
19216895 TCTTTTTCATAGACCGCCACAAAGGCTTCATTTTCATAGATTGCCACAAAGACTTC
1 TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTC
19216951 CCTTTTCTGG
Statistics
Matches: 110, Mismatches: 27, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
81 105 0.95
82 5 0.05
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (81 bp):
TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCATA
GATTGCAACAAAAGCT
Found at i:19216868 original size:54 final size:54
Alignment explanation
Indices: 19216748--19216957 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 54
19216738 TTTATAGATC
* * * * * *
19216748 GCCACAAAGACTTCCTTTTTATAGATCACCACAGAGGTTTCCTTTTCATGGATT
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
* * * * * *
19216802 GCAATAGAGGCTTCATTTTCATGGATCGCCATAAAGGCTTCCTTTTCATGGGTT
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
* * ** * * * **
19216856 ACCACAAAGGCTTCATTTTGATAGATTTCCACAAAAGCTTCTTTTTCATAGACC
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
* *
19216910 GCCACAAAGGCTTCATTTTCATAGATTGCCACAAAGACTTCCCTTTTC
1 GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTT-CCTTTTC
19216958 TGGCGTGTTC
Statistics
Matches: 122, Mismatches: 33, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
54 116 0.95
55 6 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (54 bp):
GCCACAAAGGCTTCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATGGATT
Found at i:19224210 original size:16 final size:15
Alignment explanation
Indices: 19224187--19224226 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
19224177 TCTATAAATA
*
19224187 TGATTATGTGTATTG
1 TGATTATGTGTAATG
19224202 TGATATATGTGTAATG
1 TGAT-TATGTGTAATG
19224218 TGATGTATG
1 TGAT-TATG
19224227 CCTAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
TGATTATGTGTAATG
Found at i:19224530 original size:156 final size:155
Alignment explanation
Indices: 19224170--19224521 Score: 533
Period size: 156 Copynumber: 2.3 Consensus size: 155
19224160 GCTCAAGTGC
19224170 CAAATTATCTATAAATATGATTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATG
1 CAAATTATCTATAAATATG-TTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATG
* *
19224235 AGGATGTAGTTGCTATGAAAATTATATTAAATTGTATATATGTGTAAAGTGTGTATTGTGATATG
65 AGGATGTAGTTGCTATGAAAATTATATTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATA
19224300 TGTTTATATGACATGTGACCATTATG
130 TGTTTATATGACATGTGACCATTATG
* ** *
19224326 CAAATTATCGATAAATATGGTTGCGTGTATTGTGATATATGTGTAATGTGATGTATGCTTAAATG
1 CAAATTATCTATAAATAT-GTTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATG
* * * * *
19224391 AGTATGTGGTTGTTATGCAAATTATTTTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATA
65 AGGATGTAGTTGCTATGAAAATTATATTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATA
19224456 TGTTTATATGACATGTGACCATTATG
130 TGTTTATATGACATGTGACCATTATG
* * * * **
19224482 TAATTTATCTATAAACATGTTTTGAATATTGTGATATATG
1 CAAATTATCTATAAATATGTTATGTGTATTGTGATATATG
19224522 CTTGAATGTT
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
155 18 0.10
156 157 0.89
157 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (155 bp):
CAAATTATCTATAAATATGTTATGTGTATTGTGATATATGTGTAATGTGATGTATGCCTAAATGA
GGATGTAGTTGCTATGAAAATTATATTAAATTGTATATACGTGTAAAGTGTGTATTGTGATATAT
GTTTATATGACATGTGACCATTATG
Found at i:19226113 original size:17 final size:17
Alignment explanation
Indices: 19226085--19226118 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19226075 AACTAATCAA
19226085 CCAACACTCACTTATCTT
1 CCAACACTCACTT-TCTT
19226103 CCAAC-CTCACTTTCTT
1 CCAACACTCACTTTCTT
19226119 GACCGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (17 bp):
CCAACACTCACTTTCTT
Found at i:19226609 original size:21 final size:21
Alignment explanation
Indices: 19226544--19226598 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
19226534 GTTGAAGAAC
*
19226544 AAAGAAAATAAAATTGTTTTA
1 AAAGAAAATAAAATTGTATTA
19226565 AAAGAAAATAAAATTGTATTA
1 AAAGAAAATAAAATTGTATTA
19226586 AAAGAAAATAAAA
1 AAAGAAAATAAAA
19226599 CTAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAGAAAATAAAATTGTATTA
Found at i:19227559 original size:17 final size:17
Alignment explanation
Indices: 19227537--19227573 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19227527 TCAATTTTGC
19227537 AATAAAAAAATAAAAAA
1 AATAAAAAAATAAAAAA
* *
19227554 AATAAAAAATTAAACAA
1 AATAAAAAAATAAAAAA
19227571 AAT
1 AAT
19227574 TATTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAAAAAATAAAAAA
Found at i:19238912 original size:29 final size:29
Alignment explanation
Indices: 19238876--19238950 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
19238866 TTATTGATTA
* *
19238876 CCACAAAGGTATTTCTTATCAGAGATTTG
1 CCACAAAGGCATTCCTTATCAGAGATTTG
* * *
19238905 CCACAAAGCCATTCCTTATTAGAGATTTT
1 CCACAAAGGCATTCCTTATCAGAGATTTG
*
19238934 CTACAAAGGCATTCCTT
1 CCACAAAGGCATTCCTT
19238951 TAATAGAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (29 bp):
CCACAAAGGCATTCCTTATCAGAGATTTG
Found at i:19241121 original size:61 final size:58
Alignment explanation
Indices: 19241015--19241126 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 58
19241005 TTAATATTAG
* * * *
19241015 ATTAATATAATACTTATCAAGATAAATATTAGATTAATTTTAATATTAAATATATTGA
1 ATTAATAGAATACTTATCAAGATAAATATTAAATGAAATTTAATATTAAATATATTGA
19241073 ATTAATAGAATACTTATCTACAAGATAAATATTAAATGAAATTTAATATTAAAT
1 ATTAATAGAATACTTA--T-CAAGATAAATATTAAATGAAATTTAATATTAAAT
19241127 TAATAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
58 15 0.32
60 1 0.02
61 31 0.66
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.40
Consensus pattern (58 bp):
ATTAATAGAATACTTATCAAGATAAATATTAAATGAAATTTAATATTAAATATATTGA
Found at i:19241170 original size:17 final size:17
Alignment explanation
Indices: 19241100--19241173 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
19241090 CTACAAGATA
*
19241100 AATATTAAATGAAATTT
1 AATATTAAATTAAATTT
**
19241117 AATATTAAATT-AATAA
1 AATATTAAATTAAATTT
*
19241133 AATACT--ATTAAA-TT
1 AATATTAAATTAAATTT
*
19241147 AAGTATTGAATTAAATTT
1 AA-TATTAAATTAAATTT
19241165 AATATTAAA
1 AATATTAAA
19241174 ACTATTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 5 0.11
15 5 0.11
16 8 0.18
17 22 0.50
18 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:19244441 original size:68 final size:69
Alignment explanation
Indices: 19244333--19244526 Score: 198
Period size: 68 Copynumber: 2.8 Consensus size: 69
19244323 TTAAAATCAG
* * * * * * *
19244333 GAGTCTCCTAGGATAGTTAACATGGGATCATAGTGCGTAAGACCATAGCTAGGCTATGGA-AACA
1 GAGTCTACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAGAACA
*
19244397 AATG
66 AATA
*
19244401 GAGT-TCACTAGGACACTAAACATGGGTTAATAATGTGTAAGACCATAGCTAGGCTAT-GAGAAC
1 GAGTCT-ACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAGAAC
*
19244464 ATATA
65 AAATA
** * * * *
19244469 GAGTCTGGTAGGACATTAAACATGGGTTCGTACTGTGTAAAACCATAGCT-GAGCTATG
1 GAGTCTACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAG-GCTATG
19244527 ATAACAGAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
67 4 0.04
68 99 0.95
69 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (69 bp):
GAGTCTACTAGGACACTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAGAACA
AATA
Done.