Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 282 of 322
Found at i:93577997 original size:98 final size:96
Alignment explanation
Indices: 93577804--93578018 Score: 244
Period size: 92 Copynumber: 2.3 Consensus size: 96
93577794 CGAGGCTGAC
* * *
93577804 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTGTCGATGCCATGTCTCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAG--CACACATACTCGTGTCGATGCCATGTCCCAGACA
*
93577869 TGGTCTTACACTGGCACCTCTATACGTGCCAAT
64 TGATCTTACACTGGCACCTCTATACGTGCCAAT
*
93577902 GCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTTGTCGATG-CATGTCCCAGACCT
1 GCCATGTCCCAGACATGGTCTTACACTAGCACACATACTCG-TGTCGATGCCATGTCCCAGACAT
* * * * * *
93577963 -ATCTTACACTGGCTCCTGTCT-CAATTCCGAT
65 GATCTTACACTGGCACCTCTATAC-GTGCCAAT
*
93577994 GCCATGTCCCATACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
93578019 GTGTCTCTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 1 0.01
92 46 0.45
93 15 0.15
94 13 0.13
97 1 0.01
98 27 0.26
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCACACATACTCGTGTCGATGCCATGTCCCAGACATG
ATCTTACACTGGCACCTCTATACGTGCCAAT
Found at i:93580000 original size:13 final size:13
Alignment explanation
Indices: 93579984--93580011 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93579974 ATTCGAGTCT
93579984 ATAATTCATATTA
1 ATAATTCATATTA
93579997 ATAATTCATATTA
1 ATAATTCATATTA
93580010 AT
1 AT
93580012 TATGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATTCATATTA
Found at i:93590530 original size:47 final size:47
Alignment explanation
Indices: 93590476--93590760 Score: 455
Period size: 47 Copynumber: 6.1 Consensus size: 47
93590466 TTAGGATTTT
** * *
93590476 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
93590523 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
93590570 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
93590617 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
93590664 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
93590711 ATGTGATGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
93590758 ATG
1 ATG
93590761 CGAAATGTGT
Statistics
Matches: 226, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
47 223 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:93590576 original size:22 final size:22
Alignment explanation
Indices: 93590505--93590623 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
93590495 GTATATATGA
93590505 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
93590527 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
93590552 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
93590574 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
93590599 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
93590621 GAT
1 GAT
93590624 GAATGTGAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:93590670 original size:22 final size:22
Alignment explanation
Indices: 93590548--93590717 Score: 70
Period size: 22 Copynumber: 7.3 Consensus size: 22
93590538 ACATGCATAT
*
93590548 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
93590570 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
*
93590594 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
*
93590617 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
93590641 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
*
93590664 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
93590688 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
93590711 ATGTGAT
1 ATGTGAT
93590718 GAATGTGGAA
Statistics
Matches: 112, Mismatches: 9, Indels: 54
0.64 0.05 0.31
Matches are distributed among these distances:
22 31 0.28
23 29 0.26
24 28 0.25
25 24 0.21
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:93590790 original size:46 final size:46
Alignment explanation
Indices: 93590734--93590870 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
93590724 GGAAGTGTAT
93590734 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
93590780 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
93590826 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
93590871 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:93593224 original size:60 final size:59
Alignment explanation
Indices: 93593104--93593240 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
93593094 CAGTGTTAAC
*
93593104 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* * * *
93593165 TGGGCCTAGCCCATATCAGTATTAATCTGGGTCGTAGCCTTATTACA-ACTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCC-CATTACAGA-TCAGAG-TATAT
* *
93593225 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
93593241 TAACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:93598977 original size:41 final size:40
Alignment explanation
Indices: 93598870--93598983 Score: 110
Period size: 37 Copynumber: 2.9 Consensus size: 40
93598860 TGGATAATTT
* **
93598870 GAAGTAATAGATTGACACCCAGTGTCTCATCGGCCTTTCC
1 GAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTTTCC
* * ** *
93598910 GAAGTAA-A-TTAG-TACCCAGTACCTCATCGAATTTATCC
1 GAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTT-TCC
*
93598948 GAAGCAATAGTTTGACACCCAGTGTCTCATC-AACTT
1 GAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTT
93598984 GAGTAATCCC
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
37 16 0.29
38 11 0.20
39 2 0.04
40 14 0.25
41 13 0.23
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (40 bp):
GAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTTTCC
Found at i:93606526 original size:24 final size:25
Alignment explanation
Indices: 93606469--93606533 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
93606459 TTGTTTTTAT
93606469 TATTAAGT-TATTATTATAATAATA
1 TATTAAGTATATTATTATAATAATA
* *
93606493 TATT-ATTATATTA-TATACCTAA-A
1 TATTAAGTATATTATTATA-ATAATA
93606516 TATTAAGTATATCTATTA
1 TATTAAGTATAT-TATTA
93606534 GTAGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
23 11 0.33
24 18 0.55
25 2 0.06
26 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTAAGTATATTATTATAATAATA
Found at i:93617093 original size:16 final size:16
Alignment explanation
Indices: 93617072--93617109 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
93617062 AAAATACTAT
93617072 ATAAATAATTAT-TAAA
1 ATAAAT-ATTATATAAA
93617088 ATAAATATTATATAAA
1 ATAAATATTATATAAA
*
93617104 AAAAAT
1 ATAAAT
93617110 TTTGAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATATTATATAAA
Found at i:93621241 original size:26 final size:26
Alignment explanation
Indices: 93621224--93621277 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
93621214 AACAGAGAAA
93621224 GAAACGAAAAAGAGAGAAAGAAATAAG
1 GAAA-GAAAAAGAGAGAAAGAAATAAG
93621251 GAAAGAAAAAGA-A-AAAGAAA-AAG
1 GAAAGAAAAAGAGAGAAAGAAATAAG
93621274 GAAA
1 GAAA
93621278 TTTAGGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 1 0.04
26 8 0.30
27 4 0.15
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (26 bp):
GAAAGAAAAAGAGAGAAAGAAATAAG
Found at i:93621256 original size:12 final size:11
Alignment explanation
Indices: 93621239--93621277 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
93621229 GAAAAAGAGA
93621239 GAAAGAAATAAG
1 GAAAGAAA-AAG
93621251 GAAAGAAAAAG
1 GAAAGAAAAAG
*
93621262 AAAAAGAAAAAG
1 -GAAAGAAAAAG
93621274 GAAA
1 GAAA
93621278 TTTAGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (11 bp):
GAAAGAAAAAG
Found at i:93625136 original size:46 final size:45
Alignment explanation
Indices: 93625034--93625162 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 45
93625024 ACATTATGAG
*
93625034 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACAA
* * * *
93625081 ATGCTAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGACGTA
1 A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC-AA
93625128 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
93625163 TAAGAGTTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 46 0.63
47 16 0.22
48 11 0.15
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAA
Found at i:93625205 original size:46 final size:42
Alignment explanation
Indices: 93625037--93625206 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 42
93625027 TTATGAGAGC
**
93625037 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAATG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TGAGA-GTATG
* *
93625084 CTAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGACGTAAG
1 C-AGTGTAAGACATGTCTGGGACATGCATCGG-CT-GAGA-GTATG
* *
93625130 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTG
1 -CAGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAG-TATG
93625174 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -CAGTGTAAGA-CATGTCTGGGACAT-GCATCG
93625207 ACACAGATAG
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.01
44 15 0.14
45 17 0.16
46 49 0.46
47 16 0.15
48 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (42 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAGTATG
Found at i:93628360 original size:37 final size:37
Alignment explanation
Indices: 93628305--93628407 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
93628295 GGAAATATAT
93628305 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
93628342 TCCGGGTAAGACCTGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
93628379 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
93628408 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:93633916 original size:13 final size:12
Alignment explanation
Indices: 93633895--93633928 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
93633885 GTACTTGGTC
93633895 TTTTTTTTTTCT
1 TTTTTTTTTTCT
93633907 TTTCTTTTTTTCT
1 TTT-TTTTTTTCT
93633920 TTTTTTTTT
1 TTTTTTTTT
93633929 ATCTCAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:93635334 original size:3 final size:3
Alignment explanation
Indices: 93635328--93635352 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
93635318 AAAGAGGAGG
93635328 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
93635353 CAGTCATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:93635453 original size:48 final size:48
Alignment explanation
Indices: 93635370--93635487 Score: 184
Period size: 48 Copynumber: 2.5 Consensus size: 48
93635360 TGAATTTGGG
*
93635370 AAGCCGATGACCATAGTTGCTTCTCGAAAAGGGTTTTACCCAACCGAA
1 AAGCCAATGACCATAGTTGCTTCTCGAAAAGGGTTTTACCCAACCGAA
*
93635418 AAGCTAATGACCATAGTTGCTTCTCGGAAAA-GGTTTTACCCAACCGAA
1 AAGCCAATGACCATAGTTGCTTCTC-GAAAAGGGTTTTACCCAACCGAA
* *
93635466 AAGCCGATGACTATAGTTGCTT
1 AAGCCAATGACCATAGTTGCTT
93635488 TTTAATGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 59 0.92
49 5 0.08
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (48 bp):
AAGCCAATGACCATAGTTGCTTCTCGAAAAGGGTTTTACCCAACCGAA
Found at i:93636995 original size:26 final size:26
Alignment explanation
Indices: 93636966--93637073 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
93636956 TGGTACAAAT
93636966 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93636992 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93637018 TGATAATGGGTTAGGTAAAT-TATCCA
1 TGATAATGGGTTAGGTAAATGT-TCCA
*
93637044 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93637070 TGAT
1 TGAT
93637074 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 1 0.01
26 74 0.97
27 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93644071 original size:26 final size:26
Alignment explanation
Indices: 93644042--93644149 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93644032 TGGTACAAAT
93644042 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93644068 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93644094 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93644120 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93644146 TGAT
1 TGAT
93644150 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93646828 original size:3 final size:3
Alignment explanation
Indices: 93646820--93646856 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
93646810 TCAGTGACTG
* *
93646820 TTC TTC TTC TTT TTC TCC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
93646857 CTGTTAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:93646881 original size:11 final size:11
Alignment explanation
Indices: 93646865--93646897 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
93646855 CTCTGTTAAA
93646865 AGGGTTTTTTT
1 AGGGTTTTTTT
93646876 AGGGTTTTTTT
1 AGGGTTTTTTT
93646887 AGGGTTTTTTT
1 AGGGTTTTTTT
93646898 TTCAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.27, T:0.64
Consensus pattern (11 bp):
AGGGTTTTTTT
Found at i:93646949 original size:21 final size:21
Alignment explanation
Indices: 93646923--93646963 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
93646913 CAACGTGGCA
93646923 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
93646944 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
93646964 GGTTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:93649842 original size:31 final size:31
Alignment explanation
Indices: 93649804--93649866 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
93649794 AAAGATTACA
*
93649804 AAATTCGGCTATCAGAATAATACAAAATATC
1 AAATTCGGCTATCAAAATAATACAAAATATC
93649835 AAATTCGGCTATCAAAATAATACAAAATATC
1 AAATTCGGCTATCAAAATAATACAAAATATC
93649866 A
1 A
93649867 CAATCAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (31 bp):
AAATTCGGCTATCAAAATAATACAAAATATC
Found at i:93651732 original size:176 final size:176
Alignment explanation
Indices: 93651481--93652137 Score: 711
Period size: 180 Copynumber: 3.7 Consensus size: 176
93651471 TTTCAGTCTA
* * * * *
93651481 CAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTCCCTTTTTAACCTGCTCTCTTG-TCACCT
1 CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATTTTCAACCTGCTCTCTTGCT-ACCT
* * *
93651545 CAAAGAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACATGAAGATAGGATTCACCATT
65 CAGAGAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCACCATT
*
93651610 CTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCC
130 CTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCT
* * * *
93651657 CATTCTGCTTCCTTGCTACCTCAGGAAAATAAAACT-CATTCTTCAACCTGCTCTCTTGCTACGT
1 CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATT-TTCAACCTGCTCTCTTGCTACCT
* * *
93651721 CAGAGAAATAAGGCTTGGTGGTAAAATCTGTTCCATTGTCGATACATGGAA-ATAAGATTCACCA
65 CAGAGAAATAAGGC-TAGTGGTAAAATCTGCTCCATTGCCGATACAT-GAAGATAAGATTCACCA
*
93651785 -TCTGCAAAGATCTGCTCCGCTGCAA-TCTCAGGGAGATAAAATCTTCAATTTT
128 TTCT-C---GATCTGCTCCGCTGCAACT-TCAGGGAGATAAAATCTTCAATTCT
*
93651837 CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATCTTTCAACTTGCTCTCTTGCTACCT
1 CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAT-TTTCAACCTGCTCTCTTGCTACCT
* * * * * * * *
93651901 CAGAGAGATAAGGCCAATAGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGACTCGCCAT
65 CAGAGAAATAAGGCTAGT-GGTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCACCAT
* * * ** * * * *
93651966 CCTCAATCTGCTCCACAACTACCT-AGGGAAATAAGATCTGT-AA-TCTT
129 TCTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCT-TCAATTC-T
* * *
93652013 CGGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTCTCTTGCTACTT
1 CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAC-ATTTTCAACCTGCTCTCTTGCTACCT
* * * * * *
93652078 CAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGTAGATAAGATT
65 CAGAGAAATAAGG-CTAGTGG-TAAAATCTGCTCCATTGCCGATACATGAAGATAAGATT
93652138 TGCGTCCTCC
Statistics
Matches: 405, Mismatches: 56, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
175 4 0.01
176 116 0.29
177 93 0.23
178 39 0.10
179 4 0.01
180 146 0.36
181 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATTTTCAACCTGCTCTCTTGCTACCTC
AGAGAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCACCATTC
TCGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCT
Found at i:93652281 original size:147 final size:147
Alignment explanation
Indices: 93652007--93652433 Score: 579
Period size: 147 Copynumber: 2.9 Consensus size: 147
93651997 TAAGATCTGT
* *
93652007 AATCTTCGGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTCTCTTG
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATTTTCAACCTGCTCTCTTG
* *
93652072 CTACTTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGTAGATAAGAT
65 CTACCTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGAT
*
93652137 TTGCGTCCTCCAATCTTC
130 TTGCCTCCTCCAATCTTC
* * * *
93652155 AATCTTCAGTATGCTTTCTTGCTACCTCAGAAAGGTAAGACTCAATTTTCAACCTGCTCTCTTGC
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATTTTCAACCTGCTCTCTTGC
** *
93652220 TACCTCAGAGAGATAAGGTCTTGAGGCTTAAA-CTTGCTCCATTGCCGGTACATGGATATAAGAT
66 TACCTCAGAGAGATAAGGTCTTGAGGCTTAAATC-TGCTCCATTGCCAATACATGGAGATAAGAT
* *
93652284 TTGCCTCTTCCAATCTTT
130 TTGCCTCCTCCAATCTTC
* * *
93652302 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTACTTTCTTG
1 AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC-TCAATTTTCAACCTGCTCTCTTG
* ** * * * *
93652367 CTTCCTCAGAGAGATAAGG-CCAGTGGCTAAAAAATCTACCCCATTGCCAATACATGGAGATAAG
65 CTACCTCAGAGAGATAAGGTCTTGAGGCT--TAAATCTGCTCCATTGCCAATACATGGAGATAAG
93652431 ATT
128 ATT
93652434 AGCCATCTGT
Statistics
Matches: 243, Mismatches: 31, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
146 1 0.00
147 138 0.57
148 74 0.30
149 29 0.12
150 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (147 bp):
AATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATTTTCAACCTGCTCTCTTGC
TACCTCAGAGAGATAAGGTCTTGAGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATT
TGCCTCCTCCAATCTTC
Found at i:93652981 original size:64 final size:64
Alignment explanation
Indices: 93652880--93653073 Score: 298
Period size: 64 Copynumber: 3.0 Consensus size: 64
93652870 TTCATGTATC
* * * *
93652880 ATGCTTATGACAAATAATTAGGATGTTATGATCAAAATGAATCAAATACTCTTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
93652944 ATGCTTATGTTAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * **
93653008 ATGATTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
93653072 AT
1 AT
93653074 ATGAATGATA
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:93654242 original size:20 final size:21
Alignment explanation
Indices: 93654197--93654244 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
93654187 TTTGATTGAT
* *
93654197 TCTTTCTTTCTTTCTTTTTTA
1 TCTTTTTTTCTTTCTTATTTA
*
93654218 T-TTTTTTTCTTT-TTATTTC
1 TCTTTTTTTCTTTCTTATTTA
93654237 TCTTTTTT
1 TCTTTTTT
93654245 ATTCTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (21 bp):
TCTTTTTTTCTTTCTTATTTA
Found at i:93654936 original size:11 final size:11
Alignment explanation
Indices: 93654920--93654949 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
93654910 ACCTTTTTCT
93654920 TTTTTTTGTTG
1 TTTTTTTGTTG
*
93654931 TTTTTTTGTTT
1 TTTTTTTGTTG
93654942 TTTTTTTG
1 TTTTTTTG
93654950 GAATTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTGTTG
Found at i:93669668 original size:43 final size:43
Alignment explanation
Indices: 93669619--93669785 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
93669609 AGTTACCTAG
* *
93669619 ATGTGATTACATGTAAAACCATGTCTGGGACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCTAT
*
93669661 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATC-TAT
* *** * * * *
93669705 ATATGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCTAT
* * *
93669748 ATGTGATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT
93669786 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 92 0.90
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCTAT
Found at i:93677657 original size:79 final size:81
Alignment explanation
Indices: 93677521--93677705 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
93677511 TTGAATGATG
*
93677521 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
93677585 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
93677600 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
93677662 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
93677680 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93677706 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:93677719 original size:40 final size:40
Alignment explanation
Indices: 93677522--93677705 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
93677512 TGAATGATGT
* * * *
93677522 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
93677562 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
93677602 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93677640 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93677681 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
93677706 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:93677727 original size:79 final size:79
Alignment explanation
Indices: 93677574--93677738 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
93677564 GGACTAAGAT
* **
93677574 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
93677639 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
93677653 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
93677716 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
93677732 CCGAAGG
1 CCGAAGG
93677739 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:93680286 original size:20 final size:20
Alignment explanation
Indices: 93680261--93680300 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
93680251 AGCCTCAAAG
93680261 TTAGCTTTTCATTTTTCTTT
1 TTAGCTTTTCATTTTTCTTT
93680281 TTAGCTTTTCATTTTTCTTT
1 TTAGCTTTTCATTTTTCTTT
93680301 GCCAAGTTCT
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:0.10, C:0.15, G:0.05, T:0.70
Consensus pattern (20 bp):
TTAGCTTTTCATTTTTCTTT
Found at i:93683540 original size:21 final size:20
Alignment explanation
Indices: 93683512--93683550 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
93683502 CAAAACTTGT
93683512 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
93683532 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
93683551 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:93684612 original size:20 final size:20
Alignment explanation
Indices: 93684587--93684627 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
93684577 TTTCATTCAT
93684587 ATCACACTTACCATATTTGA
1 ATCACACTTACCATATTTGA
93684607 ATCACACTTACCATATTTGA
1 ATCACACTTACCATATTTGA
93684627 A
1 A
93684628 CTAACTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (20 bp):
ATCACACTTACCATATTTGA
Found at i:93685338 original size:43 final size:43
Alignment explanation
Indices: 93685253--93685338 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
93685243 TCATATTTGA
* *
93685253 TTTCTCATCTCACAATCATTTCTCATATTTTCCATTTTAATAT
1 TTTCTCATCTCACAATCATTTCTCATATTTTCCACTTCAATAT
* * * *
93685296 TTTCTCATCTCATATTTATTTCTCATCTTTGT-CACTTCAATAT
1 TTTCTCATCTCACAATCATTTCTCATATTT-TCCACTTCAATAT
93685339 CAATCACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCACAATCATTTCTCATATTTTCCACTTCAATAT
Found at i:93688828 original size:41 final size:41
Alignment explanation
Indices: 93688783--93688882 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
93688773 TCATTGGGTT
** *
93688783 TGCTCACACAAGTTAACGGTCAAAATGTAGCTACATGGTGC
1 TGCTCACACAAGTTAACGGTCAAAACATAGCTACACGGTGC
* *
93688824 TGCTCACACAAGCTGACGGTCAAAACATAGCTACACGGTGC
1 TGCTCACACAAGTTAACGGTCAAAACATAGCTACACGGTGC
*
93688865 TACTCACACAAGTTAACG
1 TGCTCACACAAGTTAACG
93688883 AGTAATCGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
TGCTCACACAAGTTAACGGTCAAAACATAGCTACACGGTGC
Found at i:93690868 original size:27 final size:27
Alignment explanation
Indices: 93690838--93690948 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
93690828 AATCTCATAT
* *
93690838 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
* * *
93690865 CTGTAGGGTAGAATTATTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATACCC
* *
93690892 TTGTAGGATAGAATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATACCC
* * *
93690919 TTGTATGATAGAATTACTAAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
93690946 CTG
1 CTG
93690949 ATTTGTAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATACCC
Found at i:93690960 original size:27 final size:27
Alignment explanation
Indices: 93690930--93691161 Score: 218
Period size: 27 Copynumber: 8.6 Consensus size: 27
93690920 TGTATGATAG
*
93690930 AATTACTAAAATACCCCTGATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
93690957 AATTACCAAAATACCCCT-AGTCTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
93690984 GATTACCAAAATACCCCTAATTTTTGA
1 AATTACCAAAATACCCCTGATTTGTAA
** *
93691011 AATTACTGAAATACCCTTGATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
93691038 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * *
93691065 AATTATCGAAATACCCTTGATTTAG-AA
1 AATTACCAAAATACCCCTGATTT-GTAA
* **
93691092 AATTA-CAGAAATACCCCTAATTTACAA
1 AATTACCA-AAATACCCCTGATTTGTAA
* * **
93691119 AATTACAAAAATACCCTTGAATTTCAAA
1 AATTACCAAAATACCCCTG-ATTTGTAA
*
93691147 AATTACAAAAATACC
1 AATTACCAAAATACC
93691162 ATTAGCTTGC
Statistics
Matches: 169, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 143 0.85
28 24 0.14
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:93690961 original size:54 final size:52
Alignment explanation
Indices: 93690903--93691216 Score: 211
Period size: 54 Copynumber: 5.8 Consensus size: 52
93690893 TGTAGGATAG
* *
93690903 AATTACTGAAATGCCCTTGTATGATAGAATTACTAAAATACCCCTGATTTGTAA
1 AATTACTGAAATACCCTTGTATG-TA-AATTACCAAAATACCCCTGATTTGTAA
** * * * * *
93690957 AATTACCAAAATACCCCTAGTCTGTAAGATTACCAAAATACCCCTAATTTTTGA
1 AATTACTGAAATA-CCCTTGTATGTAA-ATTACCAAAATACCCCTGATTTGTAA
* *
93691011 AATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGGAA
1 AATTACTGAAATACCCTTG-TATGT-AAATTACCAAAATACCCCTGATTTGTAA
* * * **
93691065 AATTA-TCGAAATACCCTTGATTTAGAAAATTA-CAGAAATACCCCTAATTTACAA
1 AATTACT-GAAATACCCTTG-TAT-GTAAATTACCA-AAATACCCCTGATTTGTAA
** * * * * * * *
93691119 AATTACAAAAATACCCTTGAATTTCAAAAATTACAAAAATA-CCATTAGCTTGCAA
1 AATTACTGAAATACCCTTGTATGT---AAATTACCAAAATACCCCTGA-TTTGTAA
* * *
93691174 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AATTACTGAAATACCCTT-GTATGTA-AATTACCAAAATACCC
93691217 TTGTAGGGTG
Statistics
Matches: 204, Mismatches: 40, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
53 11 0.05
54 144 0.71
55 45 0.22
56 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (52 bp):
AATTACTGAAATACCCTTGTATGTAAATTACCAAAATACCCCTGATTTGTAA
Found at i:93691015 original size:81 final size:81
Alignment explanation
Indices: 93690930--93691216 Score: 240
Period size: 81 Copynumber: 3.5 Consensus size: 81
93690920 TGTATGATAG
* *
93690930 AATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-AGTCTGTAAGATTACCAAA
1 AATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGA-TCTGGAAAATTACCAAA
*
93690994 ATACCCCTAATTTTTG-A
65 ATACCCCTAA-TTTAGAA
* * * * *
93691011 AATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTATCGAAA
1 AATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGATCTGGAAAATTACCAAAA
* *
93691076 TACCCTTGATTTAGAA
66 TACCCCTAATTTAGAA
* ** * * * ** *
93691092 AATTAC-AGAAATACCCCTAATTTACAAAATTACAAAAATACCCTTGAATTTCAAAAATTACAAA
1 AATTACTA-AAATACCCCTGATTTGTAAAATTACCAAAATACCCCTG-ATCTGGAAAATTACCAA
** **
93691156 AATACCATTAGCTT-GCAA
64 AATACCCCTAATTTAG-AA
* * * * * *
93691174 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
93691217 TTGTAGGGTG
Statistics
Matches: 164, Mismatches: 36, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
80 4 0.02
81 103 0.63
82 57 0.35
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGATCTGGAAAATTACCAAAA
TACCCCTAATTTAGAA
Found at i:93691175 original size:27 final size:27
Alignment explanation
Indices: 93691010--93691188 Score: 87
Period size: 27 Copynumber: 6.6 Consensus size: 27
93691000 CTAATTTTTG
** * * *
93691010 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACAAAAATACCATTGAATTGCA
* ** * *
93691037 AAATTACCAAAATACCCCTGATTTGGA
1 AAATTACAAAAATACCATTGAATTGCA
* * *
93691064 AAATTATC-GAAATACCCTTGATTTAG-A
1 AAATTA-CAAAAATACCATTGAATT-GCA
* ** *
93691091 AAATTACAGAAATACCCCT-AATTTACA
1 AAATTACAAAAATACCATTGAA-TTGCA
* *
93691118 AAATTACAAAAATACCCTTGAATTTCAA
1 AAATTACAAAAATACCATTGAATTGC-A
*
93691146 AAATTACAAAAATACCATT-AGCTTGCA
1 AAATTACAAAAATACCATTGA-ATTGCA
**
93691173 AAATTACTGAAATACC
1 AAATTACAAAAATACC
93691189 CTTGGTTTGT
Statistics
Matches: 127, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.02
27 99 0.78
28 26 0.20
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACAAAAATACCATTGAATTGCA
Found at i:93691690 original size:22 final size:22
Alignment explanation
Indices: 93691638--93691691 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
93691628 GCCAATTATT
* *
93691638 CTGATTATGGCTTTGTGCCAGC
1 CTGATTATGGCTCTGTGCCAAC
*
93691660 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
93691682 CTGATTATGG
1 CTGATTATGG
93691692 TTGTGTACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:93691863 original size:32 final size:32
Alignment explanation
Indices: 93691801--93691872 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
93691791 TACTCTAGTT
* * *
93691801 GATGGCTATGTGCCTAACATAATACAGTTACC
1 GATGGCTTTGTGCCTAAAATAAGACAGTTACC
* *
93691833 GATGGCTTTGTGCC-AATAATAAGACTGTTACT
1 GATGGCTTTGTGCCTAA-AATAAGACAGTTACC
*
93691865 GAAGGCTT
1 GATGGCTT
93691873 AAAGCTGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (32 bp):
GATGGCTTTGTGCCTAAAATAAGACAGTTACC
Found at i:93695906 original size:79 final size:81
Alignment explanation
Indices: 93695797--93695979 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
93695787 TACTCGTTCA
* *
93695797 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
93695860 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
93695877 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
93695940 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
93695956 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
93695980 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:93695979 original size:40 final size:40
Alignment explanation
Indices: 93695776--93695979 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
93695766 CGGAATTTAA
** *
93695776 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93695816 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93695856 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
93695895 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
93695935 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
93695975 CCGGA
1 CCGGA
93695980 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:93696745 original size:56 final size:56
Alignment explanation
Indices: 93696678--93696797 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
93696668 TATTAGTTTA
93696678 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
93696734 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGTCATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
93696790 TTGCCCAT
1 TTGCCCAT
93696798 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:93697360 original size:21 final size:21
Alignment explanation
Indices: 93697335--93697374 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
93697325 AGAAATCCAT
93697335 TAAATA-GATAATTCAAACATA
1 TAAATATGATAATT-AAACATA
93697356 TAAATATGATAATTAAACA
1 TAAATATGATAATTAAACA
93697375 AGAATGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAATATGATAATTAAACATA
Found at i:93713654 original size:42 final size:42
Alignment explanation
Indices: 93713607--93713691 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
93713597 TTTAATGTCA
93713607 AATTATGAATTTACCCCTAACATTTTAACTTTTGTAAAATTT
1 AATTATGAATTTACCCCTAACATTTTAACTTTTGTAAAATTT
93713649 AATTATGAATTTACCCCTAACATTTTAACTTTTGTAAAATTT
1 AATTATGAATTTACCCCTAACATTTTAACTTTTGTAAAATTT
93713691 A
1 A
93713692 GTCACTAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (42 bp):
AATTATGAATTTACCCCTAACATTTTAACTTTTGTAAAATTT
Found at i:93714892 original size:33 final size:33
Alignment explanation
Indices: 93714846--93714922 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
93714836 TAATAAGACA
* * * *
93714846 AGCCTTGGATTTAAGAGGCTACAATGATGGGTC
1 AGCCTTAGATTTAAGAGGCTAAAAGGATAGGTC
* *
93714879 AGCCTTAGCTTTAAGAGGCTAAAAGGATAGGTG
1 AGCCTTAGATTTAAGAGGCTAAAAGGATAGGTC
93714912 AGCCTTA-ATTT
1 AGCCTTAGATTT
93714923 TAATAGGGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 3 0.08
33 34 0.92
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (33 bp):
AGCCTTAGATTTAAGAGGCTAAAAGGATAGGTC
Found at i:93729833 original size:209 final size:209
Alignment explanation
Indices: 93729473--93729890 Score: 800
Period size: 209 Copynumber: 2.0 Consensus size: 209
93729463 CATACAAGCA
93729473 CGAAATTCTAGTTAACATTATTTGAATAACTCCCGTTGGCACACTTATAAAACCGAATTCCAGCT
1 CGAAATTCTAGTTAACATTATTTGAATAACTCCCGTTGGCACACTTATAAAACCGAATTCCAGCT
*
93729538 TATTTTTTTTTATATTCGCATCAAACATTGGAAACATAAATCAAATATTAACCACACATTCACAT
66 TATTTTTTTTTATATTCACATCAAACATTGGAAACATAAATCAAATATTAACCACACATTCACAT
*
93729603 TAACTATGTGGAACACATATAGTAACTTAACAAGCCATTTTTGCATGGCCATACATATATACATC
131 TAACTATGTGGAACACATATAGTAACTTAACAAGCCATTTTCGCATGGCCATACATATATACATC
*
93729668 ATCAAAATGATACT
196 ATCAAAAAGATACT
93729682 CGAAATTCTAGTTAACATTATTTGAATAACTCCCGTTGGCACACTTATAAAACCGAATTCCAGCT
1 CGAAATTCTAGTTAACATTATTTGAATAACTCCCGTTGGCACACTTATAAAACCGAATTCCAGCT
93729747 TATTTTTTTTTATATTCACATCAAACATTGGAAACATAAATCAAATATTAACCACACATTCACAT
66 TATTTTTTTTTATATTCACATCAAACATTGGAAACATAAATCAAATATTAACCACACATTCACAT
*
93729812 TAACTATGTGGAACACATATAGTAACTTAACAAGCCATTTTCGCATGGCTATACATATATACATC
131 TAACTATGTGGAACACATATAGTAACTTAACAAGCCATTTTCGCATGGCCATACATATATACATC
93729877 ATCAAAAAGATACT
196 ATCAAAAAGATACT
93729891 TATTTAACAA
Statistics
Matches: 205, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 205 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (209 bp):
CGAAATTCTAGTTAACATTATTTGAATAACTCCCGTTGGCACACTTATAAAACCGAATTCCAGCT
TATTTTTTTTTATATTCACATCAAACATTGGAAACATAAATCAAATATTAACCACACATTCACAT
TAACTATGTGGAACACATATAGTAACTTAACAAGCCATTTTCGCATGGCCATACATATATACATC
ATCAAAAAGATACT
Found at i:93737042 original size:50 final size:49
Alignment explanation
Indices: 93736931--93737105 Score: 210
Period size: 50 Copynumber: 3.6 Consensus size: 49
93736921 AGATACCGAC
* * * *
93736931 GCCATGTCCCAGACATGGTCTTACACTA-GCTCACACATCAAAGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTACTCTCACATATCGAAGTCGAT
* *
93736979 GCCATGTCCCAGACATTGTCTTACACTGACTCTCATATATCGAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-ACTCTCACATATCGAAGTCGAT
* * * *
93737029 TCCATGTCCCAGACATGGTCTTACACTAGCTCTCACCTGTCGATA-CCGAT
1 GCCATGTCCCAGACATGGTCTTACACTA-CTCTCACATATCGA-AGTCGAT
*
93737079 GCCATGTCTCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
93737106 GACACATATC
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 26 0.24
49 2 0.02
50 80 0.73
51 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTACTCTCACATATCGAAGTCGAT
Found at i:93737114 original size:98 final size:97
Alignment explanation
Indices: 93736932--93737114 Score: 244
Period size: 98 Copynumber: 1.9 Consensus size: 97
93736922 GATACCGACG
* *
93736932 CCATGTCCCAGACATGGTCTTACACTAGCTCACACATCAAAGTCAATGCCATGTCCCAGACATTG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACACATCAAAGCCAATGCCATGTCCCAGACATGG
*
93736997 TCTTACACTGACTCTCATATATCGAAGTCGATT
66 TCTTACACTGAC-CACATATATCGAAGTCGATT
* * * * *
93737030 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACCTGTCGATA-CCGATGCCATGTCTCAGACA
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACA-C-ATC-AAAGCCAATGCCATGTCCCAGACA
93737094 TGGTCTTACACTGA-CACATAT
63 TGGTCTTACACTGACCACATAT
93737115 CACGCTGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
98 39 0.53
99 1 0.01
100 32 0.43
101 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (97 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACACATCAAAGCCAATGCCATGTCCCAGACATGG
TCTTACACTGACCACATATATCGAAGTCGATT
Found at i:93738691 original size:46 final size:46
Alignment explanation
Indices: 93738610--93738731 Score: 120
Period size: 46 Copynumber: 2.6 Consensus size: 46
93738600 CGTAGCCGAC
* * * * *
93738610 GCATGTCCCAGACATATCCTACACTGGCTTACGTCTCGAGGCCAAT
1 GCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCAAT
* * **
93738656 GCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTCAATGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAGGCCAAT
*
93738702 GCGATGTCCTAGACATGGTCTTACACTAGC
1 GC-ATGTCCCAGACAT-GTCTTACACTAGC
93738732 TCTCACAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 37 0.60
47 12 0.19
48 13 0.21
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCAAT
Found at i:93742830 original size:17 final size:18
Alignment explanation
Indices: 93742808--93742854 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
93742798 AAAAAATTAG
*
93742808 AATTTAGTTG-ATAAAAT
1 AATTTAATTGAATAAAAT
*
93742825 AATTTAATTGAATAAATT
1 AATTTAATTGAATAAAAT
93742843 AA-TTAATT-AATA
1 AATTTAATTGAATA
93742855 TTTTGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 4 0.15
17 15 0.56
18 8 0.30
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTTAATTGAATAAAAT
Found at i:93746218 original size:30 final size:29
Alignment explanation
Indices: 93746179--93746235 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
93746169 ATAACTGATT
*
93746179 CATATAACCATTACATATATCATATTTTTC
1 CATACAACCATTACATATATCAT-TTTTTC
*
93746209 CATACAACCATTTCATATATCATTTTT
1 CATACAACCATTACATATATCATTTTT
93746236 CTCACCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (29 bp):
CATACAACCATTACATATATCATTTTTTC
Found at i:93747055 original size:15 final size:15
Alignment explanation
Indices: 93747035--93747064 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93747025 TCACTATTAC
93747035 AATTATGGCTAAATT
1 AATTATGGCTAAATT
93747050 AATTATGGCTAAATT
1 AATTATGGCTAAATT
93747065 GCCATATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
AATTATGGCTAAATT
Found at i:93754182 original size:38 final size:38
Alignment explanation
Indices: 93754131--93754411 Score: 375
Period size: 38 Copynumber: 7.3 Consensus size: 38
93754121 AATGGAGAAT
*
93754131 TATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
93754169 TATATCCGGGCTAAGTTCTGAAGGCATTCATGCAGGTG
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
93754207 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
93754245 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 -TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* ** * *
93754284 TATATCCGGGCTAAGTCCCGAAGGTATTTATGATGATG
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
93754322 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
93754360 TTATATCTGGGCTAAAGTCCCGTAGGC-TTTGTGTTGGTAT
1 -TATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT-G
93754400 TATATCCGGGCT
1 TATATCCGGGCT
93754412 TAAAGTCCTG
Statistics
Matches: 214, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
38 134 0.63
39 68 0.32
40 12 0.06
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (38 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:93754287 original size:77 final size:76
Alignment explanation
Indices: 93754131--93754411 Score: 384
Period size: 77 Copynumber: 3.7 Consensus size: 76
93754121 AATGGAGAAT
* * *
93754131 TATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTATATCCGGGCTAAGTTCTGAAGGCAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTATATCCGGGCTAAGTCCCGAAGGCAT
*
93754196 TCATGCAGGTG
66 TCATGCTGGTG
93754207 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCA
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG-TATATCCGGGCTAAGTCCCGAAGGCA
93754272 TTCATGCTGGTG
65 TTCATGCTGGTG
* ** * *
93754284 TATATCCGGGCTAAGTCCCGAAGGTATTTATGATGATGTATATCCGGGCTAAGTCCCGAAGGCAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTATATCCGGGCTAAGTCCCGAAGGCAT
*
93754349 TCGTGCTGGTG
66 TCATGCTGGTG
* * * * *
93754360 TTATATCTGGGCTAAAGTCCCGTAGGC-TTTGTGTTGGTATTATATCCGGGCT
1 -TATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT-GTATATCCGGGCT
93754412 TAAAGTCCTG
Statistics
Matches: 184, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
76 74 0.40
77 87 0.47
78 23 0.12
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (76 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTATATCCGGGCTAAGTCCCGAAGGCAT
TCATGCTGGTG
Found at i:93754332 original size:115 final size:115
Alignment explanation
Indices: 93754130--93754386 Score: 417
Period size: 115 Copynumber: 2.2 Consensus size: 115
93754120 TAATGGAGAA
* * *
93754130 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTATATCCGGGCTAAGTTCTGAAGGCA
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTATATCCGGGCTAAGTCCCGAAGGCA
*
93754195 TTCATGCAGGTGTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
66 TTCATGCAGATGTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
93754245 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTATATCCGGGCTAAGTCCCGAAGGTA
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTATATCCGGGCTAAGTCCCGAAGGCA
*
93754310 TTTATG-ATGATGTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
66 TTCATGCA-GATGTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
93754360 TTATATCTGGGCTAAAGTCCCGTAGGC
1 TTATATCTGGGCT-AAGTCCCGAAGGC
93754387 TTTGTGTTGG
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
114 1 0.01
115 118 0.90
116 12 0.09
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (115 bp):
TTATATCTGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCAGATGTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:93774391 original size:39 final size:39
Alignment explanation
Indices: 93774337--93774630 Score: 432
Period size: 39 Copynumber: 7.5 Consensus size: 39
93774327 NNNNNNNNNN
*
93774337 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
93774376 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
93774415 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
93774454 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* ** * *
93774493 -TATATCCGGGCTAAGTCCCGAAGGTATTTATGATGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
93774531 -TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
93774569 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
93774608 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
93774631 CATGCTTTGT
Statistics
Matches: 234, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
38 67 0.29
39 145 0.62
40 22 0.09
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:93774619 original size:154 final size:157
Alignment explanation
Indices: 93774338--93774630 Score: 468
Period size: 154 Copynumber: 1.9 Consensus size: 157
93774328 NNNNNNNNNT
* * *
93774338 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCA
1 TATATCCGGGCTAAGTCCCGAAGGCATTTATGATGATGTTATATCCGGGCTAAGTCCCGAAGGCA
* * *
93774403 TTCGTGTTGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGC-T
66 TTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTT
93774467 -AAGTCCCGAAGGCATTCATGCTGGTG
131 AAAGTCCCGAAGGCATTCATGCTGGTG
*
93774493 TATATCCGGGCTAAGTCCCGAAGGTATTTATGATGATG-TATATCCGGGCTAAGTCCCGAAGGCA
1 TATATCCGGGCTAAGTCCCGAAGGCATTTATGATGATGTTATATCCGGGCTAAGTCCCGAAGGCA
* *
93774557 TTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTATTATATCCGGGCT
66 TTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCT
93774621 TAAAGTCCCG
130 TAAAGTCCCG
93774631 CATGCTTTGT
Statistics
Matches: 126, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
154 72 0.57
155 46 0.37
156 8 0.06
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (157 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTATGATGATGTTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTT
AAAGTCCCGAAGGCATTCATGCTGGTG
Found at i:93775342 original size:101 final size:101
Alignment explanation
Indices: 93775214--93775413 Score: 391
Period size: 101 Copynumber: 2.0 Consensus size: 101
93775204 TTCTTAGACT
93775214 CCTAATGAGTCTAGTTTCAAATGAAATAAACGATAACATATTTCGAATTCTATATAATGAGAAAT
1 CCTAATGAGTCTAGTTTCAAATGAAATAAACGATAACATATTTCGAATTCTATATAATGAGAAAT
93775279 TTGATTCGTAGTGAAGAGTGGTCAGAATAGTCAATC
66 TTGATTCGTAGTGAAGAGTGGTCAGAATAGTCAATC
*
93775315 CCTAATGAGTCTAGTTTCAAATGAAATAAACGATAACATATTTCGAATTCTGTATAATGAGAAAT
1 CCTAATGAGTCTAGTTTCAAATGAAATAAACGATAACATATTTCGAATTCTATATAATGAGAAAT
93775380 TTGATTCGTAGTGAAGAGTGGTCAGAATAGTCAA
66 TTGATTCGTAGTGAAGAGTGGTCAGAATAGTCAA
93775414 ACAGTGAAAT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (101 bp):
CCTAATGAGTCTAGTTTCAAATGAAATAAACGATAACATATTTCGAATTCTATATAATGAGAAAT
TTGATTCGTAGTGAAGAGTGGTCAGAATAGTCAATC
Found at i:93776574 original size:30 final size:30
Alignment explanation
Indices: 93776517--93776576 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
93776507 ATTTTCATAG
* * *
93776517 TTTTAGGTTAGGTTTTCTTTTTCCTTTTAT
1 TTTTAGATTAGGTTTCCCTTTTCCTTTTAT
*
93776547 TTTTAGATTAGGTTTACCCTTTTCTTTTTA
1 TTTTAGATTAGGTTT-CCCTTTTCCTTTTA
93776577 GAATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.13, C:0.12, G:0.12, T:0.63
Consensus pattern (30 bp):
TTTTAGATTAGGTTTCCCTTTTCCTTTTAT
Found at i:93782018 original size:47 final size:46
Alignment explanation
Indices: 93781967--93782100 Score: 159
Period size: 46 Copynumber: 2.9 Consensus size: 46
93781957 AAGGTGGAAA
* *
93781967 TATGTGGCAGTTTATCTGCATTAATGTGACACTATTCACGATTTGAT
1 TATGTGGCAGTTTATCTGCATTATTGTGACACTATTCACAATTT-AT
* *
93782014 TATGTGGCAGTATATCTGCGATT-TTGGTG--ACT-TGTCAATAATTTAT
1 TATGTGGCAGTTTATCTGC-ATTATT-GTGACACTAT-TC-ACAATTTAT
93782060 TATGTGGCAGTTTATCTGCATTATTGTGACACTATTCACAA
1 TATGTGGCAGTTTATCTGCATTATTGTGACACTATTCACAA
93782101 ATTTGGTGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
45 7 0.10
46 30 0.41
47 29 0.40
48 7 0.10
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (46 bp):
TATGTGGCAGTTTATCTGCATTATTGTGACACTATTCACAATTTAT
Found at i:93790968 original size:73 final size:73
Alignment explanation
Indices: 93790819--93790977 Score: 246
Period size: 73 Copynumber: 2.2 Consensus size: 73
93790809 ACGGGCAATA
* *
93790819 GACACGGACGTGTGTCAGGCCGTGTGAAAACTCCTGTAGGTTCAAATTTAGAATTTAATTCACAC
1 GACACGGGCGTGTGTCAGGCAGTGTGAAAACTCCTGTAGGTTCAAATTTAGAATTTAATTCACAC
* **
93790884 GGGCATGG
66 GGCCACAG
* *
93790892 GACACGGGCGTGTGTCAGGCAGTGTGAAAACTCCTGTAGGTTCAAATTTGGAATTTAATTCCCAC
1 GACACGGGCGTGTGTCAGGCAGTGTGAAAACTCCTGTAGGTTCAAATTTAGAATTTAATTCACAC
93790957 GGCCACAG
66 GGCCACAG
*
93790965 GACACGGGTGTGT
1 GACACGGGCGTGT
93790978 CCCTAGATGC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (73 bp):
GACACGGGCGTGTGTCAGGCAGTGTGAAAACTCCTGTAGGTTCAAATTTAGAATTTAATTCACAC
GGCCACAG
Found at i:93796507 original size:20 final size:21
Alignment explanation
Indices: 93796469--93796507 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93796459 TTATAATGAC
93796469 CACACGGGCGTGTTGCCCTTT
1 CACACGGGCGTGTTGCCCTTT
*
93796490 CACATGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
93796508 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTT
Found at i:93803434 original size:43 final size:43
Alignment explanation
Indices: 93803304--93803461 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
93803294 TTTTGATGTG
* * * ***
93803304 TGATTTTGTGTAAGATCGTGTCCGGGATGTTGGCATCGAT-TT
1 TGATTTTGTGTAAGACCATGTCTGGGACAATGGCATCGATATT
* *
93803346 GAGATTTATGTGTAAGACCATGTCTGGGAC-ATCGGCGTCG-TATT
1 -TGATTT-TGTGTAAGACCATGTCTGGGACAAT-GGCATCGATATT
93803390 TGATTTTGTGTAAGACCATGTCTGGGACAATGGCATCGATATT
1 TGATTTTGTGTAAGACCATGTCTGGGACAATGGCATCGATATT
** *
93803433 TGATTACGTGTAAGACCACGTCTGGGACA
1 TGATTTTGTGTAAGACCATGTCTGGGACA
93803462 TTGGTATTGT
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 28 0.29
43 44 0.45
44 26 0.27
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
TGATTTTGTGTAAGACCATGTCTGGGACAATGGCATCGATATT
Found at i:93810665 original size:42 final size:43
Alignment explanation
Indices: 93810607--93810709 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
93810597 ATCGATTTGA
* * *
93810607 GATTTACGTGTAAGACCATATCTGAGACATCGGTATC-GTATTT
1 GATTT-CGTGTAAGACCATATCTGAGACAGCGGCATCAATATTT
* *
93810650 GATTTCGTGTAAGACCATGTCTGGGACAGCGGCATCAATATTT
1 GATTTCGTGTAAGACCATATCTGAGACAGCGGCATCAATATTT
* *
93810693 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
93810710 CGTCTAGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATATCTGAGACAGCGGCATCAATATTT
Found at i:93810693 original size:43 final size:42
Alignment explanation
Indices: 93810607--93810719 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
93810597 ATCGATTTGA
* * * * *
93810607 GATTTACGTGTAAGACCATATCTGAGACATCGGTATCGTATTT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGCGGCATCATATTT
93810650 GATTTCGTGTAAGACCATGTCTGGGACAGCGGCATCAATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGCGGCATC-ATATTT
* * * *
93810693 GATTACATGTAAGACCACGTCTAGGAC
1 GATTTCGTGTAAGACCATGTCTGGGAC
93810720 GTTGGCATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGCGGCATCATATTT
Found at i:93812231 original size:212 final size:212
Alignment explanation
Indices: 93811864--93812288 Score: 850
Period size: 212 Copynumber: 2.0 Consensus size: 212
93811854 GCGTGTGGTT
93811864 AGCCGTGTGACCCAAGTCAGTTTCGACCACGGCCAAGGCACACGGGCATGTCTCCAACCGTGTGG
1 AGCCGTGTGACCCAAGTCAGTTTCGACCACGGCCAAGGCACACGGGCATGTCTCCAACCGTGTGG
93811929 TACAAGTCAATATGTATGCCCTGTTTAGCCATGGCTTAGACACACGGGCGTGTCTAATGCCGTGT
66 TACAAGTCAATATGTATGCCCTGTTTAGCCATGGCTTAGACACACGGGCGTGTCTAATGCCGTGT
93811994 GAGGTACACGGCCTGATCACACGGGCATGTGACTTGTGTAACTTTGAAAATTTATTAAGTTTCTA
131 GAGGTACACGGCCTGATCACACGGGCATGTGACTTGTGTAACTTTGAAAATTTATTAAGTTTCTA
93812059 AGAAATTTTGTATCTCA
196 AGAAATTTTGTATCTCA
93812076 AGCCGTGTGACCCAAGTCAGTTTCGACCACGGCCAAGGCACACGGGCATGTCTCCAACCGTGTGG
1 AGCCGTGTGACCCAAGTCAGTTTCGACCACGGCCAAGGCACACGGGCATGTCTCCAACCGTGTGG
93812141 TACAAGTCAATATGTATGCCCTGTTTAGCCATGGCTTAGACACACGGGCGTGTCTAATGCCGTGT
66 TACAAGTCAATATGTATGCCCTGTTTAGCCATGGCTTAGACACACGGGCGTGTCTAATGCCGTGT
93812206 GAGGTACACGGCCTGATCACACGGGCATGTGACTTGTGTAACTTTGAAAATTTATTAAGTTTCTA
131 GAGGTACACGGCCTGATCACACGGGCATGTGACTTGTGTAACTTTGAAAATTTATTAAGTTTCTA
93812271 AGAAATTTTGTATCTCA
196 AGAAATTTTGTATCTCA
93812288 A
1 A
93812289 CCCTTTCCTA
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 213 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (212 bp):
AGCCGTGTGACCCAAGTCAGTTTCGACCACGGCCAAGGCACACGGGCATGTCTCCAACCGTGTGG
TACAAGTCAATATGTATGCCCTGTTTAGCCATGGCTTAGACACACGGGCGTGTCTAATGCCGTGT
GAGGTACACGGCCTGATCACACGGGCATGTGACTTGTGTAACTTTGAAAATTTATTAAGTTTCTA
AGAAATTTTGTATCTCA
Found at i:93816778 original size:16 final size:16
Alignment explanation
Indices: 93816757--93816793 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
93816747 GTCAAAATAC
93816757 AATTTTATTATTT-ATT
1 AATTTT-TTATTTCATT
93816773 AATTTTTTATTTCATT
1 AATTTTTTATTTCATT
93816789 -ATTTT
1 AATTTT
93816794 CAAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
AATTTTTTATTTCATT
Found at i:93822805 original size:106 final size:101
Alignment explanation
Indices: 93822677--93822916 Score: 272
Period size: 106 Copynumber: 2.3 Consensus size: 101
93822667 AAAAATTGTC
*
93822677 AAATAAATCAAAAACAA-A-AAAAATTACATTC-A-TAACAAATCACAATAAACATTAAACTAAA
1 AAATAAATTAAAAA-AACATAAAAATTACATTCAACTAACAAATCACAATAAACATTAAACTAAA
*
93822738 CAAATACTTAACCTAATCATAAATTACTAACAAAATAACTTTA
65 C-AA-AC--AA-CTAATAAT-AATTACTAACAAAATAACTTTA
*
93822781 AAATAAATTTAAAAAAACATAAAAATTTACATTCATAACTTAACAAATCACAATAAACATTAAAT
1 AAATAAA-TTAAAAAAACATAAAAA-TTACATTC--AAC-TAACAAATCACAATAAACATTAAAC
* * *
93822846 TAAACAAACAATTTATAATAGTTACTAACAAAATAACTTTA
61 TAAACAAACAACTAATAATAATTACTAACAAAATAACTTTA
*
93822887 AAATAAATTAAAAGCAACATAAAAATTACA
1 AAATAAATTAAAA-AAACATAAAAATTACA
93822917 ATAAAAACTA
Statistics
Matches: 119, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
104 9 0.08
105 18 0.15
106 43 0.36
107 13 0.11
108 2 0.02
110 3 0.03
111 2 0.02
112 29 0.24
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.26
Consensus pattern (101 bp):
AAATAAATTAAAAAAACATAAAAATTACATTCAACTAACAAATCACAATAAACATTAAACTAAAC
AAACAACTAATAATAATTACTAACAAAATAACTTTA
Found at i:93822850 original size:112 final size:106
Alignment explanation
Indices: 93822709--93822913 Score: 286
Period size: 106 Copynumber: 1.9 Consensus size: 106
93822699 ATTACATTCA
*
93822709 TAACAAATCACAATAAACATTAAACTAAACAAATACTTAACCTAATCATAAATTACTAACAAAAT
1 TAACAAATCACAATAAACATTAAACTAAAC-AA-AC--AA-CTAATAAT-AATTACTAACAAAAT
93822774 AACTTTAAAATAAATTTAAAA-AAACATAAAAATTTACATTCATAACT
60 AACTTTAAAATAAA-TTAAAAGAAACATAAAAATTTACATTCATAACT
* * * *
93822821 TAACAAATCACAATAAACATTAAATTAAACAAACAATTTATAATAGTTACTAACAAAATAACTTT
1 TAACAAATCACAATAAACATTAAACTAAACAAACAACTAATAATAATTACTAACAAAATAACTTT
*
93822886 AAAATAAATTAAAAGCAACATAAAAATT
66 AAAATAAATTAAAAGAAACATAAAAATT
93822914 ACAATAAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
105 6 0.07
106 40 0.47
107 5 0.06
108 2 0.02
110 2 0.02
111 2 0.02
112 29 0.34
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (106 bp):
TAACAAATCACAATAAACATTAAACTAAACAAACAACTAATAATAATTACTAACAAAATAACTTT
AAAATAAATTAAAAGAAACATAAAAATTTACATTCATAACT
Found at i:93868110 original size:75 final size:75
Alignment explanation
Indices: 93868021--93868171 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
93868011 TATTTTAAGG
*
93868021 CGGTTAGCTGTGAAGACTTAGAAAAGTGGATGTTTCCTATGCAAGAAGAGATGGAATCACTCCAC
1 CGGTTAGCTGTGAAGACTCAGAAAAGTGGATGTTTCCTATGCAAGAAGAGATGGAATCACTCCAC
*
93868086 AAAAATAGAA
66 AAAAACAGAA
*
93868096 CGGTTAGCTGTGAAGACTCAGAAAAGTGGATGTTTGCTATGCAAGAAGAGATGGAATCACTCCAC
1 CGGTTAGCTGTGAAGACTCAGAAAAGTGGATGTTTCCTATGCAAGAAGAGATGGAATCACTCCAC
93868161 AAAAACAGAA
66 AAAAACAGAA
93868171 C
1 C
93868172 ATGGGACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (75 bp):
CGGTTAGCTGTGAAGACTCAGAAAAGTGGATGTTTCCTATGCAAGAAGAGATGGAATCACTCCAC
AAAAACAGAA
Found at i:93873371 original size:17 final size:17
Alignment explanation
Indices: 93873351--93873401 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
93873341 TAATTTAAAA
93873351 AAAAATAAAAAAAATTC
1 AAAAATAAAAAAAATTC
****
93873368 AAAAATGTTTAAAATTC
1 AAAAATAAAAAAAATTC
93873385 AAAAATAAAAAATAATT
1 AAAAATAAAAAA-AATT
93873402 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATAAAAAAAATTC
Found at i:93873849 original size:18 final size:18
Alignment explanation
Indices: 93873820--93873867 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
93873810 AGTTTGGAAT
93873820 TTTTTATATTTTTAAATAA
1 TTTTTAT-TTTTTAAATAA
**
93873839 TTTTTATTTTTTTCATAA
1 TTTTTATTTTTTAAATAA
93873857 TTTTTATTTTT
1 TTTTTATTTTT
93873868 AAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTTTAAATAA
Found at i:93877968 original size:25 final size:25
Alignment explanation
Indices: 93877922--93877969 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
93877912 TCGGTTAAAT
* **
93877922 AATGATATTATGGTTTTTGATATTG
1 AATGATATTATGGTATAGGATATTG
*
93877947 AATGATATTTTGGTATAGGATAT
1 AATGATATTATGGTATAGGATAT
93877970 ATGTATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (25 bp):
AATGATATTATGGTATAGGATATTG
Found at i:93878905 original size:18 final size:18
Alignment explanation
Indices: 93878884--93879166 Score: 176
Period size: 18 Copynumber: 15.3 Consensus size: 18
93878874 AAACAATTAT
* *
93878884 TTATTCAGTAACAGTCAC
1 TTATTCAGTAACAATCAA
*
93878902 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
93878920 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* *
93878938 TTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAA
93878956 TTGATCGGTTATCCAGTAACAATCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
93878982 TTATTTAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
93879000 -TATTCAGTAGCAATTAA
1 TTATTCAGTAACAATCAA
* * * *
93879017 GTTATTCAATAGCAGTCAT
1 -TTATTCAGTAACAATCAA
* *
93879036 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAATCAA
**
93879054 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
93879072 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
* *
93879090 TTATTCAGTAACAGTCTA
1 TTATTCAGTAACAATCAA
*
93879108 TTA-TCTAGTAACAGTCAA
1 TTATTC-AGTAACAATCAA
* *
93879126 TTATTCGGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
93879144 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
93879162 TTATT
1 TTATT
93879167 TTATACCTTT
Statistics
Matches: 205, Mismatches: 46, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
17 16 0.08
18 155 0.76
19 17 0.08
20 1 0.00
24 1 0.00
25 2 0.01
26 13 0.06
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:93878924 original size:36 final size:36
Alignment explanation
Indices: 93878875--93879166 Score: 194
Period size: 36 Copynumber: 7.9 Consensus size: 36
93878865 TAACAATTAA
* * * * *
93878875 AACAATTATTTATTCAGTAACAGTCACTTATTCGGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * *
93878911 AACAATCAATTATTCAATAATAACCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * *
93878947 ATCGATCAATTGATCGGTTATCCAGTAACAATCAATTATTTAGT
1 AACAATCAATT-A-----T-T-CAGTAACAATCAGTTATTCAGT
* * *
93878991 AA-AATCAGA-TATTCAGTAGCAATTAAGTTATTCAAT
1 AACAATCA-ATTATTCAGTAACAA-TCAGTTATTCAGT
* * * *
93879027 AGCAGTCATTTATTCAGTGACAATCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
** * *
93879063 AATGATCAATTATTCAGTAATATTCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * * *
93879099 AACAGTCTATTA-TCTAGTAACAGTCAATTATTCGGT
1 AACAATCAATTATTC-AGTAACAATCAGTTATTCAGT
* *
93879135 AACAGTCAATTATTCAGTAATAATCAGTTATT
1 AACAATCAATTATTCAGTAACAATCAGTTATT
93879167 TTATACCTTT
Statistics
Matches: 193, Mismatches: 49, Indels: 28
0.71 0.18 0.10
Matches are distributed among these distances:
35 10 0.05
36 137 0.71
37 19 0.10
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
Found at i:93879339 original size:45 final size:45
Alignment explanation
Indices: 93879270--93879374 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
93879260 GAACAAATCT
* * * **
93879270 GTAATAGTAACAATATTCAACACACAAAGTGTTGAATC-GATAATG
1 GTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCAG-TAACA
*
93879315 GTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGTAACA
1 GTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCAGTAACA
93879360 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
93879375 ACAGTAACAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCAGTAACA
Found at i:93879363 original size:6 final size:6
Alignment explanation
Indices: 93879352--93879386 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
93879342 AGTGTCGAAT
93879352 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
93879387 GTCGGCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:93880398 original size:18 final size:19
Alignment explanation
Indices: 93880364--93880399 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
93880354 AATGCAATTT
93880364 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
93880383 ATATATG-TGTATATGAA
1 ATATATGATGTAAATGAA
93880400 TAGTACATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:93883489 original size:31 final size:31
Alignment explanation
Indices: 93883450--93883520 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
93883440 ACCCCAAAAT
*
93883450 CCCACACGCCCGTGTGGACTACCCGTGTCGA
1 CCCACACGCCCATGTGGACTACCCGTGTCGA
* * *
93883481 CCTACACGCCTATGTGGGCTACCCGTGTCGA
1 CCCACACGCCCATGTGGACTACCCGTGTCGA
93883512 CCCACACGC
1 CCCACACGC
93883521 TTGTGTCGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.17, C:0.42, G:0.24, T:0.17
Consensus pattern (31 bp):
CCCACACGCCCATGTGGACTACCCGTGTCGA
Found at i:93887693 original size:137 final size:137
Alignment explanation
Indices: 93887516--93887788 Score: 492
Period size: 137 Copynumber: 2.0 Consensus size: 137
93887506 GTGTCAGAAT
* *
93887516 GACTCCGAAATCCCCTGTTCTGTTTTTAGAAAATCATTATAATTTGTAAAAAAATGGTTATAAGA
1 GACTCCGAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTAAAAAAATGGTTATAAGA
93887581 TAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATGAAATCAAATAAAACACATTT
66 TAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATGAAATCAAATAAAACACATTT
*
93887646 TTAATTC
131 TGAATTC
*
93887653 GACTCCGAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTACAAAAATGGTTATAAGA
1 GACTCCGAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTAAAAAAATGGTTATAAGA
* *
93887718 TAAAATTTATATGCTTAGACTCCTTAATGCGTCTAGTTTCAAATGAAATCAAATACAACACATTT
66 TAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATGAAATCAAATAAAACACATTT
93887783 TGAATT
131 TGAATT
93887789 TTAGAAAATC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (137 bp):
GACTCCGAAATCCCCTGTTCGGTTTTTAGAAAATCATTATAAATTGTAAAAAAATGGTTATAAGA
TAAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATGAAATCAAATAAAACACATTT
TGAATTC
Found at i:93887908 original size:111 final size:111
Alignment explanation
Indices: 93887676--93887901 Score: 452
Period size: 111 Copynumber: 2.0 Consensus size: 111
93887666 CCTGTTCGGT
93887676 TTTTAGAAAATCATTATAAATTGTACAAAAATGGTTATAAGATAAAATTTATATGCTTAGACTCC
1 TTTTAGAAAATCATTATAAATTGTACAAAAATGGTTATAAGATAAAATTTATATGCTTAGACTCC
93887741 TTAATGCGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAA
66 TTAATGCGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAA
93887787 TTTTAGAAAATCATTATAAATTGTACAAAAATGGTTATAAGATAAAATTTATATGCTTAGACTCC
1 TTTTAGAAAATCATTATAAATTGTACAAAAATGGTTATAAGATAAAATTTATATGCTTAGACTCC
93887852 TTAATGCGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAA
66 TTAATGCGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAA
93887898 TTTT
1 TTTT
93887902 GTAAAATGAG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 115 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (111 bp):
TTTTAGAAAATCATTATAAATTGTACAAAAATGGTTATAAGATAAAATTTATATGCTTAGACTCC
TTAATGCGTCTAGTTTCAAATGAAATCAAATACAACACATTTTGAA
Found at i:93888411 original size:22 final size:22
Alignment explanation
Indices: 93888384--93888458 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
93888374 CACGCGTATG
93888384 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
93888406 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
93888429 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
93888453 TGTGAT
1 TGTGAT
93888459 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:93888411 original size:47 final size:47
Alignment explanation
Indices: 93888358--93889506 Score: 1938
Period size: 47 Copynumber: 24.1 Consensus size: 47
93888348 TTAGGATTTT
*
93888358 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
93888405 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888452 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888499 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888546 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888593 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888640 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888687 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888734 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888781 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888828 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888875 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888922 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93888969 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93889016 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93889063 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93889110 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
93889157 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
93889210 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
93889257 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
93889310 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
93889357 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
93889410 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
93889457 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
93889504 ATG
1 ATG
93889507 CGAAACGTGT
Statistics
Matches: 1046, Mismatches: 38, Indels: 36
0.93 0.03 0.03
Matches are distributed among these distances:
47 917 0.88
48 3 0.00
52 3 0.00
53 123 0.12
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:93889569 original size:46 final size:46
Alignment explanation
Indices: 93889480--93889570 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
93889470 GAACATGAAT
* * *
93889480 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACATGTACGAGATGG
* * *
93889526 ATATGTGGTAAAGCCGAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACATGTACGAGATG
93889571 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:93889765 original size:37 final size:37
Alignment explanation
Indices: 93889715--93889815 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
93889705 GGAAATATAT
93889715 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
93889752 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
93889789 TCCGGGTAAGACCCGATAACTACGTGT
1 TCCGGGTAAGACCCGATGACTACGTGT
93889816 AGGAACTATT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:93893050 original size:47 final size:48
Alignment explanation
Indices: 93892996--93893153 Score: 277
Period size: 47 Copynumber: 3.4 Consensus size: 48
93892986 TGCTCAAATT
93892996 ATAAGTTACTTAGTTAAGCTTGTTTAATTTGTTCTTAATATTT-CGAG
1 ATAAGTTACTTAGTTAAGCTTGTTTAATTTGTTCTTAATATTTCCGAG
93893043 ATAAGTTACTTAGTTAAGCTTGTTTAATTTGTTCTTAATATTTCCGAG
1 ATAAGTTACTTAGTTAAGCTTGTTTAATTTGTTCTTAATATTTCCGAG
* *
93893091 -TAAGTTACTTAGTTAAGCTTGTTTAATTTGCTCTTAATATTTCCG-C
1 ATAAGTTACTTAGTTAAGCTTGTTTAATTTGTTCTTAATATTTCCGAG
93893137 ATAAGTTACTTAGTTAA
1 ATAAGTTACTTAGTTAA
93893154 AGAAAATTTT
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
47 103 0.96
48 4 0.04
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (48 bp):
ATAAGTTACTTAGTTAAGCTTGTTTAATTTGTTCTTAATATTTCCGAG
Found at i:93894081 original size:46 final size:45
Alignment explanation
Indices: 93893955--93894089 Score: 209
Period size: 45 Copynumber: 3.0 Consensus size: 45
93893945 ATATCACACA
*
93893955 ATACTATTCGGGCCTTTGAGCCTAGCAGGCAATAATG-TCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCT-GGTGAG
*
93894000 ATACTATTCGGACCTTTGAGCCTAGCAGGCTATAATGCTGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAG
* *
93894045 ATACTATTTGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 ATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCTGGTGA
93894090 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
45 56 0.67
46 27 0.33
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAG
Found at i:93897207 original size:19 final size:19
Alignment explanation
Indices: 93897173--93897211 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
93897163 GATTTCGTAC
93897173 TTTGGCCCATTTTCTCTGTT
1 TTTGGCCCATTTTCTC-GTT
93897193 TTTGGCCCA-TTTCTCGTT
1 TTTGGCCCATTTTCTCGTT
93897211 T
1 T
93897212 CTTTCGCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.05, C:0.26, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTGGCCCATTTTCTCGTT
Found at i:93910992 original size:24 final size:24
Alignment explanation
Indices: 93910965--93911012 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93910955 GAAAATGTAT
93910965 ATTTTAAAGTATGGCATGTATAGA
1 ATTTTAAAGTATGGCATGTATAGA
93910989 ATTTTAAAGTATGGCATGTATAGA
1 ATTTTAAAGTATGGCATGTATAGA
93911013 CTAGTAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (24 bp):
ATTTTAAAGTATGGCATGTATAGA
Found at i:93914879 original size:43 final size:42
Alignment explanation
Indices: 93914830--93914967 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 42
93914820 CGTCCTGACG
*
93914830 TGGTCTTACATGTAATTCAATAACGATGCCTCTGTCCCAGACA
1 TGGTCTTACATGTAATTCAAT-ACGATGCCTATGTCCCAGACA
* * *
93914873 GGGTCTTACATGAAATT-AGATACGATGCCGATGTCCCAGACA
1 TGGTCTTACATGTAATTCA-ATACGATGCCTATGTCCCAGACA
* * * * *
93914915 TGGTCTTATACGTAAATCTCAATA-GAGGCCTGTGTCCTAGACA
1 TGGTCTTACATGT-AAT-TCAATACGATGCCTATGTCCCAGACA
93914958 TGGTCTTACA
1 TGGTCTTACA
93914968 CGATGTCTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.37
43 44 0.56
44 4 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
TGGTCTTACATGTAATTCAATACGATGCCTATGTCCCAGACA
Found at i:93914899 original size:42 final size:43
Alignment explanation
Indices: 93914831--93914922 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
93914821 GTCCTGACGT
* **
93914831 GGTCTTACATGTAATTCAATAACGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGAAATTCAATAACGATGCCGATGTCCCAGACAG
*
93914874 GGTCTTACATGAAATT-AGAT-ACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGAAATTCA-ATAACGATGCCGATGTCCCAGACAG
93914916 GGTCTTA
1 GGTCTTA
93914923 TACGTAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 27 0.61
43 17 0.39
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGAAATTCAATAACGATGCCGATGTCCCAGACAG
Found at i:93919459 original size:64 final size:64
Alignment explanation
Indices: 93919358--93919484 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
93919348 CCAGCCTTAT
* *
93919358 AGTTTCAGTACCAATTGGGCCTTAGCCCATTCTAACAGATAGTACCAGATGGGCTTTAACCCAC
1 AGTTTCAGTACCAATTGGGCCTTAGCCCATTATAACAGACAGTACCAGATGGGCTTTAACCCAC
93919422 AGTTTCAGTACCAATTGGGCCTTAGCCCATTATAACAGACAGTACCAGATGGGCTTTAACCCA
1 AGTTTCAGTACCAATTGGGCCTTAGCCCATTATAACAGACAGTACCAGATGGGCTTTAACCCA
93919485 TTACAGAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (64 bp):
AGTTTCAGTACCAATTGGGCCTTAGCCCATTATAACAGACAGTACCAGATGGGCTTTAACCCAC
Found at i:93919487 original size:34 final size:34
Alignment explanation
Indices: 93919363--93919487 Score: 95
Period size: 34 Copynumber: 3.8 Consensus size: 34
93919353 CTTATAGTTT
* *
93919363 CAGTACCAATTGGGCCTTAGCCCATTCTAACAGA
1 CAGTACCAATTGGGCCTTAACCCATTATAACAGA
* * *
93919397 TAGTACCAGA-TGGGCTTTAACCC------ACAGTTT
1 CAGTACCA-ATTGGGCCTTAACCCATTATAACAG--A
*
93919427 CAGTACCAATTGGGCCTTAGCCCATTATAACAGA
1 CAGTACCAATTGGGCCTTAACCCATTATAACAGA
*
93919461 CAGTACCAGA-TGGGCTTTAACCCATTA
1 CAGTACCA-ATTGGGCCTTAACCCATTA
93919488 CAGAATAAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 22
0.69 0.10 0.22
Matches are distributed among these distances:
28 4 0.06
29 1 0.01
30 18 0.26
34 41 0.59
35 2 0.03
36 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (34 bp):
CAGTACCAATTGGGCCTTAACCCATTATAACAGA
Found at i:93919522 original size:6 final size:6
Alignment explanation
Indices: 93919504--93919616 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
93919494 AAGAAACATT
* * *
93919504 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
93919553 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
93919603 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
93919617 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.78
7 9 0.11
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:93919549 original size:25 final size:25
Alignment explanation
Indices: 93919518--93919616 Score: 108
Period size: 25 Copynumber: 3.7 Consensus size: 25
93919508 GAACTAGAAT
* *
93919518 CAGAATCAAAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGGTAA
* *
93919543 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
93919568 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAG----A--ATCAGGTAA
93919599 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
93919617 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 37 0.60
27 1 0.02
31 24 0.39
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.19
Consensus pattern (25 bp):
CAGAATCAAAATCAGAATCAGGTAA
Found at i:93919571 original size:19 final size:19
Alignment explanation
Indices: 93919549--93919606 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
93919539 GTGACAGAAT
93919549 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
93919568 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
93919580 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
93919599 CAGAATCA
1 CAGAATCA
93919607 AAATCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:93919581 original size:31 final size:31
Alignment explanation
Indices: 93919546--93919616 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
93919536 TAGGTGACAG
93919546 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
93919577 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
93919608 AATCAGAAT
1 AATCAGAAT
93919617 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:93920048 original size:27 final size:27
Alignment explanation
Indices: 93920018--93920186 Score: 257
Period size: 27 Copynumber: 6.3 Consensus size: 27
93920008 GGGGCAAAAT
* * * *
93920018 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
93920045 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
93920072 GGTATTTCTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
93920099 GGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
93920126 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
93920153 GGTTATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
93920180 GGTAATT
1 GGTAATT
93920187 ACACAAAGCA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:93920199 original size:81 final size:81
Alignment explanation
Indices: 93920018--93920213 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 81
93920008 GGGGCAAAAT
* ** * *
93920018 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
93920083 CCTACAAGGGTATCTC
66 CCTACAAGGGTATCTC
* **
93920099 GGTCATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT-TATTCTA
1 GGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAT-TTCTA
* *
93920163 CCCTACAGGGGTATTTC
65 CCCTACAAGGGTATCTC
*
93920180 GGTAA-T-TACACAAAGCAGGGGTATTTTGGTAATT
1 GGTAATTCTAC-CAAA-CAGGGGTATTTCGGTAATT
93920214 TTACAAACCA
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 3 0.03
80 4 0.04
81 94 0.93
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (81 bp):
GGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
CCTACAAGGGTATCTC
Found at i:93920241 original size:27 final size:27
Alignment explanation
Indices: 93920171--93920259 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
93920161 TACCCTACAG
* ** * *
93920171 GGGTATTTCGGTAATTACACAAAGCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
93920198 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
93920225 TGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
93920252 GGGTATTT
1 GGGTATTT
93920260 CAATAATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:93920266 original size:27 final size:27
Alignment explanation
Indices: 93920209--93920269 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
93920199 GGTATTTTGG
* ***
93920209 TAATTTTACAAACCAATGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTCAA
**
93920236 TAATTTTGTAAACCAAGGGTATTTCAA
1 TAATTTTACAAACCAAGGGTATTTCAA
93920263 TAATTTT
1 TAATTTT
93920270 TTACATTGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (27 bp):
TAATTTTACAAACCAAGGGTATTTCAA
Found at i:93920293 original size:27 final size:27
Alignment explanation
Indices: 93920277--93920367 Score: 146
Period size: 27 Copynumber: 3.4 Consensus size: 27
93920267 TTTTTACATT
93920277 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
93920304 GAGGGTAAGACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
93920331 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
93920358 GAGGGTAAAA
1 GAGGGTAAAA
93920368 CGATAATTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:93920417 original size:27 final size:27
Alignment explanation
Indices: 93920378--93920519 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
93920368 CGATAATTGG
*
93920378 GTAATTTTACAAATCAAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTTA
*
93920405 GTAATTTTGCAAA-CTGAGGGTATTTCT-
1 GTAATTTTACAAATC-GAGGGTATTT-TA
* **
93920432 GTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAAATCGAGGGTATTTTA
* * * *
93920459 GTAATTTTATAAATCGGGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTTA
* * *
93920486 GTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTTA
93920513 GTAATTT
1 GTAATTT
93920520 GGTAAACTAA
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.01
27 91 0.97
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTTA
Found at i:93920509 original size:81 final size:81
Alignment explanation
Indices: 93920369--93920519 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
93920359 AGGGTAAAAC
* * *
93920369 GATAATTGGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCTGT
1 GATAATTGGGTAATTTTACAAATCAAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCAGT
93920434 AATTTTACAAATCGAG
66 AATTTTACAAATCGAG
* * ** * **
93920450 GATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAGT
1 GATAATTGGGTAATTTTACAAATCAAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCAGT
93920515 AATTT
66 AATTT
93920520 GGTAAACTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (81 bp):
GATAATTGGGTAATTTTACAAATCAAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCAGT
AATTTTACAAATCGAG
Found at i:93920751 original size:84 final size:84
Alignment explanation
Indices: 93920629--93920792 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 84
93920619 AAATCTAGCC
93920629 ACAGATATGAGATTCACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTG
1 ACAGATATGAGATTCACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTG
93920694 GGCCCGCAGGCCCATCGGG
66 GGCCCGCAGGCCCATCGGG
93920713 ACAGATATGAGATTCACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTG
1 ACAGATATGAGATTCACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTG
*
93920778 GGCCCGTAGGCCCAT
66 GGCCCGCAGGCCCAT
93920793 TGGGCCTACA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (84 bp):
ACAGATATGAGATTCACCTAGCCTAGTCCAATATTTACTACACAATCAAACAACTTATCCAATTG
GGCCCGCAGGCCCATCGGG
Found at i:93925359 original size:40 final size:40
Alignment explanation
Indices: 93925315--93925428 Score: 167
Period size: 40 Copynumber: 2.9 Consensus size: 40
93925305 GCTCCTCGTT
* *
93925315 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
93925355 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
93925395 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAA
93925429 AAAATACCAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 67 0.97
41 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:93936651 original size:68 final size:67
Alignment explanation
Indices: 93936579--93936728 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
93936569 CATCATGTGT
* * * *
93936579 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
93936641 ATGTAG
62 ATGTAG
** * *
93936647 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
93936712 AG
66 AG
93936714 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
93936729 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:93936684 original size:64 final size:64
Alignment explanation
Indices: 93936603--93936786 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
93936593 AGACATTATG
* *
93936603 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
93936667 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
93936732 AA
63 AA
* * * *
93936734 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
93936787 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:93941098 original size:68 final size:67
Alignment explanation
Indices: 93941026--93941175 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
93941016 CATCATGTGT
* * * *
93941026 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
93941088 ATGTAG
62 ATGTAG
** * *
93941094 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
93941159 AG
66 AG
93941161 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
93941176 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:93941131 original size:64 final size:64
Alignment explanation
Indices: 93941050--93941233 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
93941040 AGACATTATG
* *
93941050 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
93941114 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
93941179 AA
63 AA
* * * *
93941181 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
93941234 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:93945362 original size:28 final size:27
Alignment explanation
Indices: 93945301--93945409 Score: 96
Period size: 28 Copynumber: 4.0 Consensus size: 27
93945291 GAGGAAGCGT
*
93945301 TCTGGTGGCTATGCCAAAAATATCT-A
1 TCTGGTGGCTATGCCACAAATATCTGA
*
93945327 TTTTTGGTGGCTATGCCACAAATATCTGA
1 --TCTGGTGGCTATGCCACAAATATCTGA
* * *
93945356 TCCTGGTGGCAAAGCCACAAATTTCTGTA
1 T-CTGGTGGCTATGCCACAAATATCTG-A
* * *
93945385 TCTGGTGACTTTGTCAC-AATATCTG
1 TCTGGTGGCTATGCCACAAATATCTG
93945410 TTCTAGCAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.12
28 55 0.83
29 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACAAATATCTGA
Found at i:93948450 original size:39 final size:39
Alignment explanation
Indices: 93948379--93948486 Score: 153
Period size: 39 Copynumber: 2.7 Consensus size: 39
93948369 ATATTTTATG
* ** *
93948379 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAAC
*
93948419 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAC
*
93948458 TATATCCGGACTTAAGGTCCGCAGGCTTC
1 TGTATCCGGACTTAAGGTCCGCAGGCTTC
93948487 ATACTGGTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 50 0.81
40 12 0.19
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAC
Found at i:93948494 original size:39 final size:39
Alignment explanation
Indices: 93948398--93948534 Score: 166
Period size: 39 Copynumber: 3.5 Consensus size: 39
93948388 GCTTAAAGAC
* * *
93948398 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGT
93948437 CCGCAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGT
* * * * *
93948476 CCGCAGGCTTCATACTGGTACTATATCGGGGCTTAAAGTT
1 CCGCAGGCTTCGTGCTGGTACTATATCCGGACTT-AAGGT
* * *
93948516 CCGTAGGCTTTGTGTTGGT
1 CCGCAGGCTTCGTGCTGGT
93948535 GATTGAATTC
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 66 0.79
40 18 0.21
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.31
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGTACTATATCCGGACTTAAGGT
Found at i:93949040 original size:56 final size:56
Alignment explanation
Indices: 93948973--93949086 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
93948963 GCTTGGGACA
*
93948973 GCAGCAGTAACATGATTTTTAAAAAATCACCATAAATAGTGGAAGTTGAGTTAGAG
1 GCAGCAGTAACATGATTTTTAAAAAATCACCATAAATAGTAGAAGTTGAGTTAGAG
*
93949029 GCAGCAGTAACATGATTTTTAGAAAATCACCATAAATAGTAGAAGTTGAGTTAGAG
1 GCAGCAGTAACATGATTTTTAAAAAATCACCATAAATAGTAGAAGTTGAGTTAGAG
93949085 GC
1 GC
93949087 TGAATAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (56 bp):
GCAGCAGTAACATGATTTTTAAAAAATCACCATAAATAGTAGAAGTTGAGTTAGAG
Done.