Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 151 of 433
Found at i:46922919 original size:43 final size:43
Alignment explanation
Indices: 46922791--46922942 Score: 148
Period size: 43 Copynumber: 3.5 Consensus size: 43
46922781 ATATGTATTA
** *
46922791 TCGTGTAAGACCACATCTGGGAC-GTTAGCATCGAT-TTGTGATT
1 TCGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATT-TGATT
* * *
46922834 TACGTGTAAGACCATGTCTGGGACATTGACATCG-TATATGATT
1 T-CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
* *
46922877 TCGTGTAAGACCCTGTCTGGGTCAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
* * * *
46922920 ACATGTAAGACCACGTTTGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
46922943 GCTTGCATTG
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.32
43 33 0.38
44 27 0.31
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
Found at i:46924625 original size:21 final size:22
Alignment explanation
Indices: 46924600--46924640 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46924590 TGTTGATATC
46924600 TGAC-TTTGA-TGTGATAATGTA
1 TGACTTTTGATTGTGA-AATGTA
46924621 TGACTTTTGATTGTGAAATG
1 TGACTTTTGATTGTGAAATG
46924641 ATTGCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (22 bp):
TGACTTTTGATTGTGAAATGTA
Found at i:46928095 original size:21 final size:20
Alignment explanation
Indices: 46928054--46928095 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
46928044 AGTAATTTAA
*
46928054 TAATTATAAGTGAAAATAAT
1 TAATTATAAGTGAAAAGAAT
46928074 TAATT-TAAGTCGAAAAAGAAT
1 TAATTATAAGT-G-AAAAGAAT
46928095 T
1 T
46928096 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (20 bp):
TAATTATAAGTGAAAAGAAT
Found at i:46947011 original size:33 final size:32
Alignment explanation
Indices: 46946916--46947023 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 32
46946906 ATGAATATTG
* *
46946916 TTATCATTT-AACAAAATTAAAGTTGATATTTT
1 TTATCATTTCAA-AAAATTAAAGTTGAAATTTA
* * *
46946948 TTATCATTTTACAAAATTAAAGTTGTAATTTA
1 TTATCATTTCAAAAAATTAAAGTTGAAATTTA
* *
46946980 TTATCATTTCAAAAAATGAAAAGTTGAAATTTG
1 TTATCATTTCAAAAAAT-TAAAGTTGAAATTTA
*
46947013 TTACCATTTCA
1 TTATCATTTCA
46947024 CAGAACCACA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 41 0.64
33 23 0.36
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (32 bp):
TTATCATTTCAAAAAATTAAAGTTGAAATTTA
Found at i:46947977 original size:17 final size:17
Alignment explanation
Indices: 46947928--46947981 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
46947918 GATAGTGTCG
*
46947928 ATTACATATCAAAGAAT
1 ATTACAAATCAAAGAAT
* *
46947945 A-TAAAAATGAACAGAAT
1 ATTACAAATCAA-AGAAT
46947962 ATTACAAATCAAAGAAT
1 ATTACAAATCAAAGAAT
46947979 ATT
1 ATT
46947982 GGTCAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 8 0.27
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.26
Consensus pattern (17 bp):
ATTACAAATCAAAGAAT
Found at i:46950880 original size:48 final size:46
Alignment explanation
Indices: 46950806--46951072 Score: 286
Period size: 48 Copynumber: 5.6 Consensus size: 46
46950796 GAAAGTACCA
* * *
46950806 ATGCCATGTCCCGAACATGGTCTTACATGAATTCACATATCATTGCTG
1 ATGCCATGTCCCGAACATGGTCTTACATGCA--CACATATCATCGCCG
* * * *
46950854 ATACCATGTCCCGAACATGGTCTTACACAGGCACACAAATCATCACCG
1 ATGCCATGTCCCGAACATGGTCTT--ACATGCACACATATCATCGCCG
* *
46950902 ATGCCATGTCCCGGACATGGTCCTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCGAACATGGTCTTACA-T-GCACACATATCATCGCCG
* * * *
46950950 ATGCCATGTCCCGGACATGGTCCTACACTGGCACACATATCATCACTG
1 ATGCCATGTCCCGAACATGGTCTTACA-T-GCACACATATCATCGCCG
46950998 ATGCCATGTCCC-AGACATGGTCTTACCCA-GTCACACATATCATCGCCG
1 ATGCCATGTCCCGA-ACATGGTCTTA--CATG-CACACATATCATCGCCG
*
46951046 ATGCCATGTCCCAAACATGGTCTTACA
1 ATGCCATGTCCCGAACATGGTCTTACA
46951073 CAGGCACATT
Statistics
Matches: 191, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
46 5 0.03
47 1 0.01
48 177 0.93
49 1 0.01
50 7 0.04
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (46 bp):
ATGCCATGTCCCGAACATGGTCTTACATGCACACATATCATCGCCG
Found at i:46950970 original size:96 final size:96
Alignment explanation
Indices: 46950806--46951080 Score: 374
Period size: 96 Copynumber: 2.9 Consensus size: 96
46950796 GAAAGTACCA
* * * * *
46950806 ATGCCATGTCCCGAACATGGTCTTACA-T-GAATTCACATATCATTGCTGATACCATGTCCCGAA
1 ATGCCATGTCCCGGACATGGTCTTACACTGGCA--CACATATCATCGCCGATGCCATGTCCCGAA
46950869 CATGGTCTTACACAGGCACACAAATCATCACCG
64 CATGGTCTTACACAGGCACACAAATCATCACCG
* *
46950902 ATGCCATGTCCCGGACATGGTCCTACACTGGCACACATATCATCGCCGATGCCATGTCCCGGACA
1 ATGCCATGTCCCGGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCGAACA
* * * *
46950967 TGGTCCTACACTGGCACACATATCATCACTG
66 TGGTCTTACACAGGCACACAAATCATCACCG
* * * * *
46950998 ATGCCATGTCCCAGACATGGTCTTACCCAGTCACACATATCATCGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCGGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCGAACA
46951063 TGGTCTTACACAGGCACA
66 TGGTCTTACACAGGCACA
46951081 TTTAGCACAG
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 154 0.98
97 1 0.01
98 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (96 bp):
ATGCCATGTCCCGGACATGGTCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCGAACA
TGGTCTTACACAGGCACACAAATCATCACCG
Found at i:46951066 original size:144 final size:143
Alignment explanation
Indices: 46950806--46951080 Score: 374
Period size: 144 Copynumber: 1.9 Consensus size: 143
46950796 GAAAGTACCA
* **
46950806 ATGCCATGTCCCGAACATGGTCTTACATGAATTCACATATCATTGCTGATACCATGTCCCGAACA
1 ATGCCATGTCCCGAACATGGTCCTACATGAA-TCACATATCATCACTGATACCATGTCCCGAACA
** *
46950871 TGGTCTTACACAGGCACACAAATCATCACCGATGCCATGTCCCGGACATGGTCCTACACTGGCAC
65 TGGTCTTACACAGGCACACAAATCATCACCGATGCCATGTCCCAAACATGGTCCTACACAGGCAC
46950936 ACATATCATCGCCG
130 ACATATCATCGCCG
* * *
46950950 ATGCCATGTCCCGGACATGGTCCTACACTGGCA-CACATATCATCACTGATGCCATGTCCC-AGA
1 ATGCCATGTCCCGAACATGGTCCTACA-T-GAATCACATATCATCACTGATACCATGTCCCGA-A
* * * * *
46951013 CATGGTCTTACCCAGTCACACATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGC
63 CATGGTCTTACACAGGCACACAAATCATCACCGATGCCATGTCCCAAACATGGTCCTACACAGGC
46951078 ACA
128 ACA
46951081 TTTAGCACAG
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
143 1 0.01
144 110 0.96
145 1 0.01
146 2 0.02
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (143 bp):
ATGCCATGTCCCGAACATGGTCCTACATGAATCACATATCATCACTGATACCATGTCCCGAACAT
GGTCTTACACAGGCACACAAATCATCACCGATGCCATGTCCCAAACATGGTCCTACACAGGCACA
CATATCATCGCCG
Found at i:46953396 original size:28 final size:29
Alignment explanation
Indices: 46953365--46953423 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
46953355 AAAGTGATTT
*
46953365 TTAAGGAAAA-TGTCAATT-AGGGATTAAA
1 TTAA-GAAAAGTGTAAATTGAGGGATTAAA
*
46953393 TTAAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTAAGAAAAGTGTAAATTGAGGGATTAAA
46953422 TT
1 TT
46953424 GTGAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 5 0.19
28 11 0.41
29 11 0.41
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.31
Consensus pattern (29 bp):
TTAAGAAAAGTGTAAATTGAGGGATTAAA
Found at i:46954037 original size:47 final size:47
Alignment explanation
Indices: 46953974--46954092 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
46953964 GTGCGAATAA
*
46953974 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
* *
46954021 TACCTTGATATAGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
*
46954068 TACCTTGATTTGGCTATGGGCCATG
1 TACCTTGATTTGGCTACGGGCCATG
46954093 GTATGGATAC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
Found at i:46970956 original size:29 final size:27
Alignment explanation
Indices: 46970903--46970962 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
46970893 GATTTTTAGT
* *
46970903 GAAAATGTCAATTAGGGATTCAATTGA
1 GAAAATGTAAATTAGGGATTAAATTGA
* *
46970930 GAAAAGTGTAAATTGAGGGGTTAAATTGT
1 GAAAA-TGTAAATT-AGGGATTAAATTGA
46970959 GAAA
1 GAAA
46970963 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 7 0.26
29 15 0.56
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (27 bp):
GAAAATGTAAATTAGGGATTAAATTGA
Found at i:46972917 original size:37 final size:37
Alignment explanation
Indices: 46972858--46972966 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
46972848 AGCTCAGATG
* * *
46972858 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
46972895 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
46972932 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46972967 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:46973240 original size:48 final size:48
Alignment explanation
Indices: 46973113--46973400 Score: 461
Period size: 48 Copynumber: 6.0 Consensus size: 48
46973103 ACACATCGCC
* * *
46973113 TACATATTTCACACTAGCCATTCAGCTGTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
46973163 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
46973211 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
46973259 TATATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
46973307 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
46973355 TACATATTTCACATTAGCCATTCGGCTTTACCACGTATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
46973401 TATGCATCAA
Statistics
Matches: 222, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
48 180 0.81
49 2 0.01
50 40 0.18
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:46976796 original size:80 final size:80
Alignment explanation
Indices: 46976704--46976910 Score: 344
Period size: 80 Copynumber: 2.6 Consensus size: 80
46976694 TGAAATCTAT
* * * *
46976704 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATAG-TGATATCCGGGCTAAGACCCGAAGGCAT
46976768 TCGTGCAAGTTGTTAA
65 TCGTGCAAGTTGTTAA
*
46976784 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATAGTGATATCCGGGCTAAGACCCGAAGGCATT
46976849 CGTGCAAGTTGTTAA
66 CGTGCAAGTTGTTAA
*
46976864 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGG
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATAGTGATATCCGGG
46976911 TAAAGTCCCG
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
79 1 0.01
80 120 0.99
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATAGTGATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTGTTAA
Found at i:46976908 original size:40 final size:40
Alignment explanation
Indices: 46976660--46976910 Score: 285
Period size: 40 Copynumber: 6.3 Consensus size: 40
46976650 AGAAATTGAA
* *
46976660 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAATC-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCG
* * * * *
46976701 T-ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * *
46976740 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* *
46976780 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* * *
46976820 TGATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
* *
46976860 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
46976900 TGATATCCGGG
1 TGATATCCGGG
46976911 TAAAGTCCCG
Statistics
Matches: 178, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 3 0.02
40 168 0.94
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
Found at i:46976908 original size:120 final size:120
Alignment explanation
Indices: 46976660--46976910 Score: 330
Period size: 120 Copynumber: 2.1 Consensus size: 120
46976650 AGAAATTGAA
* *
46976660 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATCTATATCCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGACAATTATGCTGAAATCTATATCCGGGCTAAGACCCGAAGG
* * * *
46976725 CAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
66 CAATTGTGCAAGTAGCTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCG
* * *
46976780 TTAAATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGTGATATCCGGGCTAAGACCCGA
1 TGATATCCGGGCTAAGACCCGAAGACAATTATGCTG-AAATC-T-ATATCCGGGCTAAGACCCGA
* * *
46976842 AGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
63 AGGCAATT-GTGCAAGTAGCTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCG
46976900 TGATATCCGGG
1 TGATATCCGGG
46976911 TAAAGTCCCG
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
117 2 0.02
118 7 0.06
119 7 0.06
120 97 0.86
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (120 bp):
TGATATCCGGGCTAAGACCCGAAGACAATTATGCTGAAATCTATATCCGGGCTAAGACCCGAAGG
CAATTGTGCAAGTAGCTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCG
Found at i:46976950 original size:120 final size:120
Alignment explanation
Indices: 46976706--46976970 Score: 264
Period size: 120 Copynumber: 2.2 Consensus size: 120
46976696 AAATCTATAT
* * *
46976706 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCTAAATCCGGGCTAAGACCCGAAGGCATTCG
* * * * *** *
46976771 TGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATAT
66 TGCAAATCGTGAAATCCGGGCTAAGACCCGAAGGCATTGGTGCAAATCACCATAA
* * *
46976826 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAGCTAAATCCGGGCTAAGACCCGAAGGCATTC
* * ** * *** *
46976890 GTGCAAATCGTGATATCCGGG-TAAAGTCCCGTTGGCCTTGGTGCGGGTTACCATAA
65 GTGCAAATCGTGAAATCCGGGCT-AAGACCCGAAGGCATTGGTGCAAATCACCATAA
* * *
46976946 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
46976971 AACGAGTACC
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
119 4 0.03
120 110 0.94
121 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCTAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAATCGTGAAATCCGGGCTAAGACCCGAAGGCATTGGTGCAAATCACCATAA
Found at i:46984831 original size:39 final size:40
Alignment explanation
Indices: 46984773--46984873 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
46984763 AAATTGAATG
* *
46984773 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
46984812 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
46984852 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46984874 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46984866 original size:40 final size:40
Alignment explanation
Indices: 46984773--46984923 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
46984763 AAATTGAATG
* * * * *
46984773 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46984812 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46984852 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
46984892 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46984924 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:46984938 original size:40 final size:38
Alignment explanation
Indices: 46984769--46984940 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
46984759 TGAGAAATTG
* *
46984769 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
46984808 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
46984845 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
46984885 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
46984925 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
46984941 TAATAAGTCC
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:46988310 original size:8 final size:8
Alignment explanation
Indices: 46988297--46988321 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46988287 AGTTGTAATA
46988297 GGCTCTCG
1 GGCTCTCG
46988305 GGCTCTCG
1 GGCTCTCG
46988313 GGCTCTCG
1 GGCTCTCG
46988321 G
1 G
46988322 ACTAGATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.40, T:0.24
Consensus pattern (8 bp):
GGCTCTCG
Found at i:46993448 original size:17 final size:17
Alignment explanation
Indices: 46993428--46993483 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
46993418 TATATGCATT
46993428 TAAAAAATCAAATAACA
1 TAAAAAATCAAATAACA
** **
46993445 TAAACAAA-GGAATAGATT
1 TAAA-AAATCAAATA-ACA
46993463 TAAAAAATCAAATAACA
1 TAAAAAATCAAATAACA
46993480 TAAA
1 TAAA
46993484 CAAAGGAATA
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (17 bp):
TAAAAAATCAAATAACA
Found at i:46993493 original size:17 final size:17
Alignment explanation
Indices: 46993438--46993493 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
46993428 TAAAAAATCA
46993438 AATAACATAAACAAAGG
1 AATAACATAAACAAAGG
** **
46993455 AATAGATTTAAA-AAATCA
1 AATA-ACATAAACAAA-GG
46993473 AATAACATAAACAAAGG
1 AATAACATAAACAAAGG
46993490 AATA
1 AATA
46993494 GATTGTAAGT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (17 bp):
AATAACATAAACAAAGG
Found at i:46993512 original size:35 final size:35
Alignment explanation
Indices: 46993425--46993497 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
46993415 AAATATATGC
46993425 ATTTAAAAAATCAAATAACATAAACAAAGGAATAG
1 ATTTAAAAAATCAAATAACATAAACAAAGGAATAG
46993460 ATTTAAAAAATCAAATAACATAAACAAAGGAATAG
1 ATTTAAAAAATCAAATAACATAAACAAAGGAATAG
46993495 ATT
1 ATT
46993498 GTAAGTTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (35 bp):
ATTTAAAAAATCAAATAACATAAACAAAGGAATAG
Found at i:47000210 original size:17 final size:17
Alignment explanation
Indices: 47000184--47000217 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47000174 AAGTTTGAAT
*
47000184 GGTCAGAAAAGTGTCAG
1 GGTCAAAAAAGTGTCAG
47000201 GGTCAAAAAAGTGTCAG
1 GGTCAAAAAAGTGTCAG
47000218 CAGAGCTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (17 bp):
GGTCAAAAAAGTGTCAG
Found at i:47002069 original size:40 final size:40
Alignment explanation
Indices: 47001986--47002166 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
47001976 GCTCGATTGT
* ** *
47001986 CTTCGGGACA-TAGCCCGG-TTATAGTAATTTGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCACACAAATGC
* *
47002026 CTTCGGGAATTAGCCCGGATTTAGTAACTCACATAAATTC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCACACAAATGC
* * * *
47002066 CTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGA-TTTAGTAACTCACACAAATGC
* * *
47002106 CTTCGGGAATT-GACCCGGATTTAGTCACTTAACACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCACACAAATGC
*
47002147 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGAATTAGCCCGGAT
47002167 ATCATTCGAA
Statistics
Matches: 114, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 80 0.70
41 30 0.26
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCACACAAATGC
Found at i:47010692 original size:20 final size:20
Alignment explanation
Indices: 47010645--47010686 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
47010635 TGAGTGAAGT
47010645 CGAAATCGAAGTCGAAGGTG
1 CGAAATCGAAGTCGAAGGTG
47010665 CGAAATCGAAGTCGAAGGTG
1 CGAAATCGAAGTCGAAGGTG
47010685 CG
1 CG
47010687 TCATCGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.36, T:0.14
Consensus pattern (20 bp):
CGAAATCGAAGTCGAAGGTG
Found at i:47020965 original size:18 final size:18
Alignment explanation
Indices: 47020926--47020968 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
47020916 GCAATTATAA
*
47020926 CCAAAGAAAATTAAAATC
1 CCAAAGAAAAATAAAATC
47020944 CCAAATGAAAAATAAAAT-
1 CCAAA-GAAAAATAAAATC
47020962 CCAAAGA
1 CCAAAGA
47020969 GGCCGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 10 0.43
19 11 0.48
ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14
Consensus pattern (18 bp):
CCAAAGAAAAATAAAATC
Found at i:47033815 original size:20 final size:20
Alignment explanation
Indices: 47033790--47033830 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47033780 AGTAATTTCT
47033790 TACTTCCTCCCTATGTGTCC
1 TACTTCCTCCCTATGTGTCC
47033810 TACTTCCTCCCTATGTGTCC
1 TACTTCCTCCCTATGTGTCC
47033830 T
1 T
47033831 CTTTCTTCCT
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:0.10, C:0.39, G:0.10, T:0.41
Consensus pattern (20 bp):
TACTTCCTCCCTATGTGTCC
Found at i:47038033 original size:55 final size:55
Alignment explanation
Indices: 47037973--47038076 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
47037963 CGTGTCAATC
*
47037973 TAATAGGTTCGA-CCACGG-GCGCTAGACACGGGCGTGTCGCACGCCCGTGCTATTT
1 TAATAGGTTC-ACCCACGGTGC-CTACACACGGGCGTGTCGCACGCCCGTGCTATTT
* * * *
47038028 TAATAGGTTCACCCATGGTTCTTCCACACGGGCGTGTCGCACGCCCGTG
1 TAATAGGTTCACCCACGGTGCCTACACACGGGCGTGTCGCACGCCCGTG
47038077 TTGTTTTGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 40 0.95
56 1 0.02
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (55 bp):
TAATAGGTTCACCCACGGTGCCTACACACGGGCGTGTCGCACGCCCGTGCTATTT
Found at i:47047852 original size:42 final size:43
Alignment explanation
Indices: 47047785--47047896 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
47047775 TCGACTTATA
* *
47047785 ATTTACGTGTAAGACCATGTTTGGGAC-ATCAACATCG-TATTTG
1 ATTT-CGTGTAAGACCATATCTGGGACAAT-AACATCGATATTTG
* **
47047828 ATTTCGTGTAAGACCCTATCTGGGACAATGGCATCGATATTTG
1 ATTTCGTGTAAGACCATATCTGGGACAATAACATCGATATTTG
* * **
47047871 ATTACATGTAAGACCACGTCTGGGAC
1 ATTTCGTGTAAGACCATATCTGGGAC
47047897 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
ATTTCGTGTAAGACCATATCTGGGACAATAACATCGATATTTG
Found at i:47049869 original size:23 final size:24
Alignment explanation
Indices: 47049842--47049893 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
47049832 ATTAATGTAT
47049842 ATATTTAAGT-TCT-TATTCATTTC
1 ATATTTAA-TCTCTCTATTCATTTC
*
47049865 ATATTTAATCTTTCTATTCATTTC
1 ATATTTAATCTCTCTATTCATTTC
47049889 ATATT
1 ATATT
47049894 CATTTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 10 0.38
24 15 0.58
ACGTcount: A:0.27, C:0.13, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATTTAATCTCTCTATTCATTTC
Found at i:47055725 original size:209 final size:209
Alignment explanation
Indices: 47055365--47055783 Score: 811
Period size: 209 Copynumber: 2.0 Consensus size: 209
47055355 GGACATTCGT
*
47055365 ATGGGAATTGTAAAAAGCAAAATGTGAGTTTTAAATCCTAGACTACTTCTGTGGCTAGTGTGGGA
1 ATGGGAATTGTAAAAAGCAAAATGTGAGTTTTAAATCCCAGACTACTTCTGTGGCTAGTGTGGGA
*
47055430 AATTTAAGATTTGTTAGACCCGAGTGCCAACGATGTGGTAGAAGTCACCTTGGTCCATGTAGAAC
66 AATTCAAGATTTGTTAGACCCGAGTGCCAACGATGTGGTAGAAGTCACCTTGGTCCATGTAGAAC
47055495 TAATGAATGTTATCAGTGTGATTCTCCAGATCATTTTATTAGAGACTGTCCCGAGAGAATTGAGA
131 TAATGAATGTTATCAGTGTGATTCTCCAGATCATTTTATTAGAGACTGTCCCGAGAGAATTGAGA
47055560 GAGAAAAATTTCAG
196 GAGAAAAATTTCAG
47055574 ATGGGAATTGTAAAAAGCAAAATGTGAGTTTTAAATCCCAGACTACTTCTGTGGCTAGTGTGGGA
1 ATGGGAATTGTAAAAAGCAAAATGTGAGTTTTAAATCCCAGACTACTTCTGTGGCTAGTGTGGGA
*
47055639 AATTCAAGATTTGTTAGACCCGAGTGCCAACGATGTGGTAGAAGTCACCTTGGTCCATGTTGAAC
66 AATTCAAGATTTGTTAGACCCGAGTGCCAACGATGTGGTAGAAGTCACCTTGGTCCATGTAGAAC
47055704 TAATGAATGTTATCAGTGTGATTCTCCAGATCATTTTATTAGAGACTGTCCCGAGAGAATTGAGA
131 TAATGAATGTTATCAGTGTGATTCTCCAGATCATTTTATTAGAGACTGTCCCGAGAGAATTGAGA
47055769 GAGAAAAATTTCAG
196 GAGAAAAATTTCAG
47055783 A
1 A
47055784 ATGCAAAACC
Statistics
Matches: 207, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 207 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (209 bp):
ATGGGAATTGTAAAAAGCAAAATGTGAGTTTTAAATCCCAGACTACTTCTGTGGCTAGTGTGGGA
AATTCAAGATTTGTTAGACCCGAGTGCCAACGATGTGGTAGAAGTCACCTTGGTCCATGTAGAAC
TAATGAATGTTATCAGTGTGATTCTCCAGATCATTTTATTAGAGACTGTCCCGAGAGAATTGAGA
GAGAAAAATTTCAG
Found at i:47059887 original size:27 final size:27
Alignment explanation
Indices: 47059850--47059904 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
47059840 AGGTGAAATG
47059850 TGTTTAGTTTGATGTTTTATGGTATAA
1 TGTTTAGTTTGATGTTTTATGGTATAA
*
47059877 TGTTTATTTTGATGTTTTATGGTATAA
1 TGTTTAGTTTGATGTTTTATGGTATAA
47059904 T
1 T
47059905 ATGAAGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (27 bp):
TGTTTAGTTTGATGTTTTATGGTATAA
Found at i:47059914 original size:27 final size:27
Alignment explanation
Indices: 47059855--47059915 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
47059845 AAATGTGTTT
* **
47059855 AGTTTGATGTTTTATGGTATAATGTTT
1 AGTTTGATGTTTTATGGTATAATATGA
*
47059882 ATTTTGATGTTTTATGGTATAATATGA
1 AGTTTGATGTTTTATGGTATAATATGA
47059909 AGTTTGA
1 AGTTTGA
47059916 AATTGTGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (27 bp):
AGTTTGATGTTTTATGGTATAATATGA
Found at i:47068578 original size:20 final size:20
Alignment explanation
Indices: 47068553--47068595 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
47068543 CTATGGTCAC
*
47068553 ACACACCCGTATGGCTTGGG
1 ACACACCCATATGGCTTGGG
*
47068573 ACACACCCATGTGGCTTGGG
1 ACACACCCATATGGCTTGGG
47068593 ACA
1 ACA
47068596 TGCCCGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (20 bp):
ACACACCCATATGGCTTGGG
Found at i:47070396 original size:50 final size:50
Alignment explanation
Indices: 47070331--47070528 Score: 245
Period size: 50 Copynumber: 3.9 Consensus size: 50
47070321 ACCGAAGCTC
* *
47070331 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * *
47070381 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CAA
* * ***
47070432 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
47070482 TCTGATACACGTACTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
47070529 AACCGTCTTA
Statistics
Matches: 122, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 81 0.66
51 39 0.32
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:47070469 original size:101 final size:101
Alignment explanation
Indices: 47070324--47070523 Score: 337
Period size: 101 Copynumber: 2.0 Consensus size: 101
47070314 TCTTGTAACC
* * ** * *
47070324 GAAGCTCTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATTTGGTAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGATAC
*
47070389 ACGTAGTAGCCTGCACTTAGTACTACACACGTGATT
66 ACGTACTAGCCTGCACTTAGTACTACACACGTGATT
47070425 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGATAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGATAC
47070490 ACGTACTAGCCTGCACTTAGTACTACACACGTGA
66 ACGTACTAGCCTGCACTTAGTACTACACACGTGA
47070524 CCTAAAACCG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGATAC
ACGTACTAGCCTGCACTTAGTACTACACACGTGATT
Found at i:47070568 original size:12 final size:12
Alignment explanation
Indices: 47070553--47070580 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47070543 CATAGTACTA
47070553 CACATGCATTCT
1 CACATGCATTCT
47070565 CACATGCATTCT
1 CACATGCATTCT
47070577 CACA
1 CACA
47070581 ACGGATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.29
Consensus pattern (12 bp):
CACATGCATTCT
Found at i:47074157 original size:38 final size:39
Alignment explanation
Indices: 47074086--47074219 Score: 155
Period size: 39 Copynumber: 3.4 Consensus size: 39
47074076 GACTAGCTCA
* * *
47074086 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTC-GGACTTAACCCGGGTT-TACTAACTCGCACG
*
47074126 AATG-CTTCGGACTTAACCCGGGTTTACTAACTCGCACA
1 AATGCCTTCGGACTTAACCCGGGTTTACTAACTCGCACG
* * *
47074164 AATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGACTTAACCCGGGTTTACTAACTCGCACG
*
47074203 AACGCCTTCGGATCTTA
1 AATGCCTTCGGA-CTTA
47074220 GTCCGGATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 20 0.25
39 53 0.65
40 8 0.10
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGACTTAACCCGGGTTTACTAACTCGCACG
Found at i:47081527 original size:40 final size:39
Alignment explanation
Indices: 47081480--47081650 Score: 211
Period size: 39 Copynumber: 4.3 Consensus size: 39
47081470 AACGACTACT
*
47081480 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAA-CCCGGATT-TAGTAACTCGCA
* * *
47081520 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCTCA
1 CAAATGCCTTCGGG-CTTAACCCGGATTTAGTAACTCGCA
* *
47081560 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGTA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
*
47081599 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
* *
47081638 CGAACGCCTTCGG
1 CAAATGCCTTCGG
47081651 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 70 0.59
40 44 0.37
41 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
Found at i:47081594 original size:39 final size:40
Alignment explanation
Indices: 47081480--47081703 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
47081470 AACGACTACT
*
47081480 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* * *
47081520 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
47081560 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
47081599 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * **
47081638 CGAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
47081679 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
47081704 CATCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 68 0.43
40 74 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47104957 original size:14 final size:14
Alignment explanation
Indices: 47104938--47104976 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
47104928 AAGAAAAATA
47104938 AAAATAAAATAAAG
1 AAAATAAAATAAAG
47104952 AAAATAAAAT-AAG
1 AAAATAAAATAAAG
*
47104965 AATAAAAAAATA
1 AA-AATAAAATA
47104977 GGAGGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAATAAAATAAAG
Found at i:47110062 original size:40 final size:40
Alignment explanation
Indices: 47110014--47110093 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
47110004 CGGGATTTAA
* *
47110014 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACCAATGCCTTCGGGACATAGC
*
47110054 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGC
47110094 TCGCACAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGC
Found at i:47110107 original size:26 final size:26
Alignment explanation
Indices: 47110067--47110119 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
47110057 GATATAGTAA
* *
47110067 CTCGCACCAATGCCTTCGGGACTTAG
1 CTCGCACAAAAGCCTTCGGGACTTAG
*
47110093 CTCGCACAAAAGCCTTTGGGACTTAG
1 CTCGCACAAAAGCCTTCGGGACTTAG
47110119 C
1 C
47110120 CCGGATATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (26 bp):
CTCGCACAAAAGCCTTCGGGACTTAG
Found at i:47110148 original size:40 final size:40
Alignment explanation
Indices: 47110090--47110243 Score: 249
Period size: 40 Copynumber: 3.9 Consensus size: 40
47110080 CTTCGGGACT
* *
47110090 TAGCTCGCACAAAAGCCTTTGGGACTTAGCCCGGATATAG
1 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
47110130 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
47110170 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAG
1 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG
*
47110210 TCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 T-AGCTCGCACAAATGCCTTCGGGACTTAGCCCGG
47110244 TTATGAATCC
Statistics
Matches: 109, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 1 0.01
40 107 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
Found at i:47118060 original size:40 final size:40
Alignment explanation
Indices: 47118012--47118091 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
47118002 CGGGATTTAA
* *
47118012 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACCAATGCCTTCGGGACATAGC
*
47118052 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGC
47118092 TCGCACAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACCAATGCCTTCGGGACATAGC
Found at i:47118105 original size:26 final size:26
Alignment explanation
Indices: 47118065--47118117 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
47118055 GATATAGTAA
* *
47118065 CTCGCACCAATGCCTTCGGGACTTAG
1 CTCGCACAAAAGCCTTCGGGACTTAG
47118091 CTCGCACAAAAGCCTTCGGGACTTAG
1 CTCGCACAAAAGCCTTCGGGACTTAG
47118117 C
1 C
47118118 CCGGATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.21
Consensus pattern (26 bp):
CTCGCACAAAAGCCTTCGGGACTTAG
Found at i:47118146 original size:40 final size:40
Alignment explanation
Indices: 47118088--47118241 Score: 231
Period size: 40 Copynumber: 3.9 Consensus size: 40
47118078 CTTCGGGACT
*
47118088 TAGCTCGCACAAAAGCCTTCGGGACTTAGCCCGGATATAG
1 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
47118128 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAG
1 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
47118168 TAGCTCGCACAAATACCTTCGGGACTTAGCCCGGA-ATTAG
1 TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG
* *
47118208 TCA-CTAGCACAAATGCCTTCGGGACTTAACCCGG
1 T-AGCTCGCACAAATGCCTTCGGGACTTAGCCCGG
47118242 TTATCAATCC
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
TAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
Found at i:47118197 original size:106 final size:105
Alignment explanation
Indices: 47117998--47118197 Score: 294
Period size: 106 Copynumber: 1.9 Consensus size: 105
47117988 AAGCCAAGTA
* * * *
47117998 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGT
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCAGATATAGT
* *
47118063 AACTCGCACCAATGCCTTCGGGACTTAGCTCGCACAAAAG
66 AACTCGCACAAATACCTTCGGGACTTAGCTCGCACAAAAG
* *
47118103 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACAAATGCCTTCGGGACTTAGCCCAGATATA
1 CCTTCGGGACTTA-ACCGGATATAGCTA-CTCGCACAAATGCCTTCGGGACATAGCCCAGATATA
*
47118167 GTAGCTCGCACAAATACCTTCGGGACTTAGC
64 GTAACTCGCACAAATACCTTCGGGACTTAGC
47118198 CCGGAATTAG
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 14 0.17
106 70 0.83
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (105 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCAGATATAGT
AACTCGCACAAATACCTTCGGGACTTAGCTCGCACAAAAG
Found at i:47121075 original size:74 final size:74
Alignment explanation
Indices: 47120954--47121100 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
47120944 TTCAAAATTA
*
47120954 TTCGCAGGAATAGCAGGTCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGCATAATC
1 TTCGCAGCAATAGCAGGTCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGCATAATC
47121019 ATACATAGT
66 ATACATAGT
*
47121028 TTCGCAGCAATAGCAGGTCTAACTATACTAGACTTAGTTCCTGTTAAAGAAGGTTTAGCATAATC
1 TTCGCAGCAATAGCAGGTCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGCATAATC
47121093 ATACATAG
66 ATACATAG
47121101 CACGTGGAGC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (74 bp):
TTCGCAGCAATAGCAGGTCTAACTATACTAGACTCAGTTCCTGTTAAAGAAGGTTTAGCATAATC
ATACATAGT
Found at i:47128731 original size:26 final size:26
Alignment explanation
Indices: 47128694--47128751 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
47128684 TGATACAAAT
47128694 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
47128720 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
47128746 TGATAA
1 TGATAA
47128752 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:47130236 original size:28 final size:26
Alignment explanation
Indices: 47130190--47130260 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
47130180 GAAAGTAGCT
* * * *
47130190 AAATTACTATAATATCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
47130218 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
47130244 AAATTACCGTTATACCC
1 AAATTACTGTTATACCC
47130261 GTAGGGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 19 0.51
27 1 0.03
28 17 0.46
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:47130406 original size:27 final size:27
Alignment explanation
Indices: 47130368--47130480 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
47130358 GAGGAAGCGT
47130368 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
47130395 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
47130422 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
47130450 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
47130476 TCTGG
1 TCTGG
47130481 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 56 0.74
28 15 0.20
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:47130473 original size:54 final size:54
Alignment explanation
Indices: 47130366--47130480 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
47130356 TGGAGGAAGC
*
47130366 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * *
47130420 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
47130474 GTTCTGG
1 GTTCTGG
47130481 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:47136051 original size:37 final size:37
Alignment explanation
Indices: 47136001--47136080 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
47135991 GTGACACGGA
47136001 TTTAGCCTGAACTAATAATTTGTTGTCATTTTAAAGG
1 TTTAGCCTGAACTAATAATTTGTTGTCATTTTAAAGG
* *
47136038 TTTAGCCTGAACTAGTAATTTGTTGTCGTTTTAAAGG
1 TTTAGCCTGAACTAATAATTTGTTGTCATTTTAAAGG
47136075 TTTAGC
1 TTTAGC
47136081 TTGGACTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (37 bp):
TTTAGCCTGAACTAATAATTTGTTGTCATTTTAAAGG
Found at i:47138420 original size:3 final size:3
Alignment explanation
Indices: 47138412--47138436 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47138402 GTAGGCCAGC
47138412 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
47138437 TTTTTTTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47138526 original size:20 final size:20
Alignment explanation
Indices: 47138501--47138545 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
47138491 CAAAATAGTT
* *
47138501 ACCTAGGTTTTATTTCAGTC
1 ACCTAGGTTTCATTGCAGTC
47138521 ACCTAGGTTTCATTGCAGTC
1 ACCTAGGTTTCATTGCAGTC
47138541 ACCTA
1 ACCTA
47138546 ACTTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (20 bp):
ACCTAGGTTTCATTGCAGTC
Found at i:47138591 original size:19 final size:19
Alignment explanation
Indices: 47138562--47138605 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
47138552 GAAAAATAAC
47138562 AAAACAGTCACTAACGTTAT
1 AAAA-AGTCACTAACGTTAT
47138582 AAAAAGTCACTAACGTTAT
1 AAAAAGTCACTAACGTTAT
47138601 AAAAA
1 AAAAA
47138606 AGAGACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (19 bp):
AAAAAGTCACTAACGTTAT
Found at i:47138759 original size:3 final size:3
Alignment explanation
Indices: 47138751--47138779 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47138741 CCTTTAACAG
47138751 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
47138780 CAGCAGCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:47139506 original size:33 final size:33
Alignment explanation
Indices: 47139464--47139550 Score: 165
Period size: 33 Copynumber: 2.6 Consensus size: 33
47139454 TCTCCCACTA
47139464 AGTATTGTATATGGGCATGAAATGGATGAGCTG
1 AGTATTGTATATGGGCATGAAATGGATGAGCTG
47139497 AGTATTGTATATGGGCATGAAATGGATGAGCTG
1 AGTATTGTATATGGGCATGAAATGGATGAGCTG
*
47139530 AGTATTGTATATGGGGATGAA
1 AGTATTGTATATGGGCATGAA
47139551 TCTCTACCCG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (33 bp):
AGTATTGTATATGGGCATGAAATGGATGAGCTG
Found at i:47139863 original size:21 final size:21
Alignment explanation
Indices: 47139824--47139864 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47139814 CAACGTGGCA
* *
47139824 AGTTAACTGGTCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
47139845 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
47139865 GGTTCTGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:47139965 original size:30 final size:31
Alignment explanation
Indices: 47139899--47139967 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
47139889 ACTGTTAGTC
* * *
47139899 AGTGACTATTTTGTCACTTTTTTATAATGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
47139930 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
47139959 AGGTGACTG
1 A-GTGACTG
47139968 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.18
30 13 0.39
31 14 0.42
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:47139983 original size:20 final size:20
Alignment explanation
Indices: 47139958--47140006 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
47139948 TTTCAAAAGT
47139958 TAGGTGACTGAAATGAAACC
1 TAGGTGACTGAAATGAAACC
*
47139978 TAGGTGACTGAAATGAAACT
1 TAGGTGACTGAAATGAAACC
47139998 TAGGTGACT
1 TAGGTGACT
47140007 ATTTTGTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (20 bp):
TAGGTGACTGAAATGAAACC
Found at i:47148411 original size:20 final size:20
Alignment explanation
Indices: 47148386--47148426 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47148376 TGTGATATGT
47148386 TGACACTACTAAGTCATAAA
1 TGACACTACTAAGTCATAAA
47148406 TGACACTACTAAGTCATAAA
1 TGACACTACTAAGTCATAAA
47148426 T
1 T
47148427 TAACCATGTA
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:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (20 bp):
TGACACTACTAAGTCATAAA
Found at i:47160116 original size:44 final size:44
Alignment explanation
Indices: 47160067--47160157 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
47160057 CATTCATGAG
*
47160067 AGTATGATCATGTTTTACTTTGTTTTTAATAATAGTTAAGTATA
1 AGTATGATCATGTTTTACTTTGTTTTTAATAACAGTTAAGTATA
* *
47160111 AGTATGATCATGTTTTACTTTTTTTTTAATAACCGTTAAGTATA
1 AGTATGATCATGTTTTACTTTGTTTTTAATAACAGTTAAGTATA
47160155 AGT
1 AGT
47160158 GTTAAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (44 bp):
AGTATGATCATGTTTTACTTTGTTTTTAATAACAGTTAAGTATA
Found at i:47170948 original size:15 final size:15
Alignment explanation
Indices: 47170928--47170961 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47170918 CAACCCAATT
47170928 TTTTGG-TTTTCAGCC
1 TTTTGGCTTTTCAG-C
47170943 TTTTGGCTTTTCAGC
1 TTTTGGCTTTTCAGC
47170958 TTTT
1 TTTT
47170962 CAGCCTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.06, C:0.18, G:0.18, T:0.59
Consensus pattern (15 bp):
TTTTGGCTTTTCAGC
Found at i:47190517 original size:34 final size:34
Alignment explanation
Indices: 47190479--47190553 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
47190469 TCTGGGCCCG
* *
47190479 AGCCCA-TATCAGTAGCAATATCAGTGTGGGCCTT
1 AGCCCATTA-CAGTAACAATATCAGTGTGGGCCTA
* *
47190513 AGCCCATTACATTAACAGTATCAGTGTGGGCCTA
1 AGCCCATTACAGTAACAATATCAGTGTGGGCCTA
47190547 AGCCCAT
1 AGCCCAT
47190554 CTCAATACAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (34 bp):
AGCCCATTACAGTAACAATATCAGTGTGGGCCTA
Found at i:47201757 original size:23 final size:24
Alignment explanation
Indices: 47201725--47201769 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
47201715 TGAAAACCCA
* *
47201725 TTTTTGTTTAAATAGCCAAATGCC
1 TTTTTGTTTAAAAAGCAAAATGCC
47201749 TTTTT-TTTAAAAAGCAAAATG
1 TTTTTGTTTAAAAAGCAAAATG
47201770 TCATTCTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (24 bp):
TTTTTGTTTAAAAAGCAAAATGCC
Found at i:47205925 original size:41 final size:40
Alignment explanation
Indices: 47205824--47205971 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
47205814 TTTTATCAAA
* *
47205824 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCTGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
*** * * *
47205864 TCACCGGCACGAAGCTTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
* * *
47205905 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGA-ATCA-T
47205947 TCACCGGCATTATAGCCTGCTAGGC
1 TCACCGGCATT-TAGCCTGCTAGGC
47205972 CCGAAGCCCG
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 31 0.36
41 29 0.34
42 13 0.15
43 12 0.14
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAATCAT
Found at i:47205978 original size:43 final size:44
Alignment explanation
Indices: 47205903--47206074 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 44
47205893 GTCTGAACTC
* **
47205903 ATTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
47205946 -TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * * *
47205989 CTT-ACTGGTATTATAGCCTGCTAGGCCCGAAGCTCGATAAT-ATT
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAT-ATCA-T
* * * *
47206033 ATTCACCAGC-TTAAAGCTTGCTAGG-CCGAGGCCCGAATATCA
1 ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
47206075 CATTTCGATA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
42 12 0.11
43 69 0.64
44 23 0.21
45 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (44 bp):
ATTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:47214434 original size:21 final size:21
Alignment explanation
Indices: 47214410--47214451 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47214400 AGAAAGAATA
47214410 ATTCAAATATTAGAGGACATG
1 ATTCAAATATTAGAGGACATG
47214431 ATTCAAATATTAGAGGACATG
1 ATTCAAATATTAGAGGACATG
47214452 TTATCGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
ATTCAAATATTAGAGGACATG
Found at i:47220616 original size:41 final size:41
Alignment explanation
Indices: 47220558--47220688 Score: 201
Period size: 41 Copynumber: 3.2 Consensus size: 41
47220548 ACAACATTTC
* *
47220558 CATTTGTTATCCTTTACGGATAAC-TCCTTTTTTGACCTTTT
1 CATTTGTTATCCTTTACGAATAACTTCC-TTTTTAACCTTTT
*
47220599 CATTTGTTATCCATTACGAATAACTTCCTTTTTAACCTTTT
1 CATTTGTTATCCTTTACGAATAACTTCCTTTTTAACCTTTT
* *
47220640 CATTTGTTATCCTTTACGAATAACTTCCTTTTCAACCTTTC
1 CATTTGTTATCCTTTACGAATAACTTCCTTTTTAACCTTTT
47220681 CATTTGTT
1 CATTTGTT
47220689 CAAAAATACC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 80 0.96
42 3 0.04
ACGTcount: A:0.21, C:0.23, G:0.07, T:0.50
Consensus pattern (41 bp):
CATTTGTTATCCTTTACGAATAACTTCCTTTTTAACCTTTT
Found at i:47227293 original size:31 final size:30
Alignment explanation
Indices: 47227238--47227310 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
47227228 TTGTATACCT
* *
47227238 AAACTATAATTTGGTGCAATTATATACGTG
1 AAACTCTAATTTGGTGCAAATATATACGTG
* * *
47227268 AAGCTCTAATTGTGGTTCAAATATATACTTG
1 AAACTCTAATT-TGGTGCAAATATATACGTG
*
47227299 AAACTTTAATTT
1 AAACTCTAATTT
47227311 TGATTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
AAACTCTAATTTGGTGCAAATATATACGTG
Found at i:47227494 original size:29 final size:30
Alignment explanation
Indices: 47227452--47227532 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 30
47227442 GAATTGGATC
*
47227452 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * * *
47227482 AAATCAAAGTTCATATATACAATTGCATATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
47227513 AAACCATAGTTCATGTATAA
1 AAATCAAAGTTCATGTATAA
47227533 TTTTGGGATT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 19 0.47
30 5 0.12
31 16 0.40
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:47231799 original size:16 final size:16
Alignment explanation
Indices: 47231778--47231809 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47231768 ATAACAATAA
47231778 TTTAATCATCAAAAAT
1 TTTAATCATCAAAAAT
*
47231794 TTTAATCATCCAAAAT
1 TTTAATCATCAAAAAT
47231810 CATACATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTAATCATCAAAAAT
Found at i:47235638 original size:40 final size:41
Alignment explanation
Indices: 47235568--47235663 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
47235558 GACTATGTTC
47235568 GGCACTAAGTGTGC-AGTTTGAAATAACTTCGGCTACAA-A
1 GGCACTAAGTGTGCGAGTTTGAAATAACTTCGGCTACAAGA
* * * *
47235607 TGGCACTAAGTGTGCGAG-TTGGAATAGCTTCGGTTATAAGA
1 -GGCACTAAGTGTGCGAGTTTGAAATAACTTCGGCTACAAGA
47235648 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
47235664 TACCGAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 47 0.94
41 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTTGAAATAACTTCGGCTACAAGA
Found at i:47236486 original size:2 final size:2
Alignment explanation
Indices: 47236479--47236503 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47236469 ATGGCATGAA
47236479 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
47236504 AATTGGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47238757 original size:24 final size:23
Alignment explanation
Indices: 47238721--47238766 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
47238711 CCTGTTACAT
47238721 GGCTCTTTGTGAGCAATCCTGATA
1 GGCTCTTTGTGAGC-ATCCTGATA
*
47238745 GGCTCTTCT-TGAGCTTCCTGAT
1 GGCTCTT-TGTGAGCATCCTGAT
47238767 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 12 0.60
25 1 0.05
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (23 bp):
GGCTCTTTGTGAGCATCCTGATA
Found at i:47245452 original size:25 final size:25
Alignment explanation
Indices: 47245424--47245471 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47245414 CGTAGAGTAG
* *
47245424 GGATATGTTCGATCTTTGAACCTAA
1 GGATATATTCAATCTTTGAACCTAA
*
47245449 GGATATATTCAATTTTTGAACCT
1 GGATATATTCAATCTTTGAACCT
47245472 GAATTGTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (25 bp):
GGATATATTCAATCTTTGAACCTAA
Found at i:47252436 original size:87 final size:87
Alignment explanation
Indices: 47252283--47252456 Score: 192
Period size: 87 Copynumber: 2.0 Consensus size: 87
47252273 AAAAATTTAC
* ** *
47252283 TTTTTTTTTCACACTCATTTGGGTATTTAAACTTTCAAAATTTATCAAAAAAACCTTCAAGCTTT
1 TTTTTTTTTCACACTCAATTGGGTATTTAAACTTTCAAAATGCATCAAAAAAACCTTCAAACTTT
*
47252348 TT-AAAAAAAAGTAATTAAGCCT
66 TTCAAAAAAAA-CAATTAAGCCT
* * *** *
47252370 TTTTTTTTTTACACTCAATTGGGTACTTT-AACTTTCGAAATGCATC-AAAAAGGTTCTCAAATT
1 TTTTTTTTTCACACTCAATTGGGTA-TTTAAACTTTCAAAATGCATCAAAAAAACCT-TCAAACT
*
47252433 TTTTCAAGAAAAACAATTAAGCCT
64 TTTTCAAAAAAAACAATTAAGCCT
47252457 CTGCTTTTGT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
86 6 0.08
87 56 0.78
88 10 0.14
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (87 bp):
TTTTTTTTTCACACTCAATTGGGTATTTAAACTTTCAAAATGCATCAAAAAAACCTTCAAACTTT
TTCAAAAAAAACAATTAAGCCT
Found at i:47252551 original size:27 final size:28
Alignment explanation
Indices: 47252503--47252557 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
47252493 AAAAATTTAT
*
47252503 AAATATTATTAAATTTGAATAAAGAAATTC
1 AAATATTATAAAATTT-AATAAA-AAATTC
47252533 AAATATTA-AAAATTT-ATAAAAAATT
1 AAATATTATAAAATTTAATAAAAAATT
47252558 AGAAAAGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 5 0.21
29 6 0.25
30 8 0.33
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
AAATATTATAAAATTTAATAAAAAATTC
Found at i:47252610 original size:29 final size:28
Alignment explanation
Indices: 47252569--47252645 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
47252559 GAAAAGCACA
*
47252569 AAAATTGT-AAAAAATTATAAAATATAT
1 AAAATCGTAAAAAAATTATAAAATATAT
* *
47252596 AGAAAT-GTAAAAAAATTTATTAAATTTTAT
1 A-AAATCGTAAAAAAA-TTA-TAAAATATAT
*
47252626 AAATTCGTAAAAAAATTATA
1 AAAATCGTAAAAAAATTATA
47252646 CATAATGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
27 3 0.07
28 12 0.29
29 9 0.21
30 18 0.43
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (28 bp):
AAAATCGTAAAAAAATTATAAAATATAT
Found at i:47252831 original size:19 final size:19
Alignment explanation
Indices: 47252803--47252840 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47252793 GACTTCGATT
*
47252803 TTTTATAATTTTTATAAAA
1 TTTTACAATTTTTATAAAA
47252822 TTTTACAATTTTTATAAAA
1 TTTTACAATTTTTATAAAA
47252841 AAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTACAATTTTTATAAAA
Found at i:47252877 original size:25 final size:25
Alignment explanation
Indices: 47252847--47252922 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
47252837 AAAAAAATTA
47252847 ATTTTTAATAAATTTTAATTTTTAT
1 ATTTTTAATAAATTTTAATTTTTAT
* * *
47252872 ATTTTTACTAAAATTTAA-TATT-T
1 ATTTTTAATAAATTTTAATTTTTAT
* *
47252895 -TTTCT-A-AAATTTTTATTTTTAT
1 ATTTTTAATAAATTTTAATTTTTAT
47252917 ATTTTT
1 ATTTTT
47252923 TCTAATTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
20 7 0.18
21 3 0.08
22 5 0.13
23 5 0.13
24 3 0.08
25 16 0.41
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTTAATAAATTTTAATTTTTAT
Found at i:47252894 original size:19 final size:18
Alignment explanation
Indices: 47252867--47252915 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
47252857 AATTTTAATT
47252867 TTTATATTTTTACTAAAA
1 TTTATATTTTTACTAAAA
*
47252885 TTTAATATTTTTTCTAAAA
1 TTT-ATATTTTTACTAAAA
*
47252904 TTTTTATTTTTA
1 TTTATATTTTTA
47252916 TATTTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTACTAAAA
Found at i:47254104 original size:41 final size:41
Alignment explanation
Indices: 47254030--47254110 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
47254020 GATTTAGTTT
* * *
47254030 ATTTAGTGGGTAAAAATTATGTTTTTGCCGTGAAGAATATA
1 ATTTAGTGGGTAAAAATTATGTTTCTACAGTGAAGAATATA
* *
47254071 ATTTGGTGGGTAAAAATTATGTTTCTATAGTGAAGAATAT
1 ATTTAGTGGGTAAAAATTATGTTTCTACAGTGAAGAATAT
47254111 GAGAAGAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.40
Consensus pattern (41 bp):
ATTTAGTGGGTAAAAATTATGTTTCTACAGTGAAGAATATA
Found at i:47254322 original size:23 final size:24
Alignment explanation
Indices: 47254296--47254355 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
47254286 AATAAACAAC
*
47254296 AAAAAGAAAAATTTTAAA-AACAT
1 AAAAAGAAAAATATTAAATAACAT
* * *
47254319 -AAAAGAAAAAAATTAAATTACTT
1 AAAAAGAAAAATATTAAATAACAT
47254342 AAAAAGAAAAATAT
1 AAAAAGAAAAATAT
47254356 ATAAGAACCG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 15 0.50
23 3 0.10
24 12 0.40
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (24 bp):
AAAAAGAAAAATATTAAATAACAT
Found at i:47254334 original size:22 final size:22
Alignment explanation
Indices: 47254284--47254335 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
47254274 AGGAGAAGAG
47254284 AAAA-TAAACAACAAAAAGAAA
1 AAAATTAAACAACAAAAAGAAA
**
47254305 AATTTTAAA-AACATAAAAGAAA
1 AAAATTAAACAACA-AAAAGAAA
47254327 AAAATTAAA
1 AAAATTAAA
47254336 TTACTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAATTAAACAACAAAAAGAAA
Found at i:47257016 original size:5 final size:5
Alignment explanation
Indices: 47257006--47257032 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47256996 TGAATCAATA
47257006 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
47257033 TTTGAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:47258397 original size:7 final size:7
Alignment explanation
Indices: 47258385--47258411 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47258375 AAATGTAAGG
47258385 TTTTTTC
1 TTTTTTC
47258392 TTTTTTC
1 TTTTTTC
47258399 TTTTTTC
1 TTTTTTC
47258406 TTTTTT
1 TTTTTT
47258412 AAATAGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:47258785 original size:45 final size:45
Alignment explanation
Indices: 47258733--47258995 Score: 257
Period size: 45 Copynumber: 5.8 Consensus size: 45
47258723 GCAAACTTGA
*
47258733 AGAAGAAGATTCATAGATATGGTGAACTTATACATGCGGTTTCAT
1 AGAAGAAGATTCATAGATATGGTGAACTTATACATGCGGATTCAT
* * * * *
47258778 GGTAGAAGATTCAT-GAATATGGTGAACTTGTATATGTGGATTCAT
1 AGAAGAAGATTCATAG-ATATGGTGAACTTATACATGCGGATTCAT
* **** * *
47258823 AGTAGAAGATTCATAGATATTACAAACTCATACATGTGGATTCAT
1 AGAAGAAGATTCATAGATATGGTGAACTTATACATGCGGATTCAT
* * *
47258868 AGAAGAAGATTAATAGATATGG-CAGA-TTCATACATGCAGATTCAT
1 AGAAGAAGATTCATAGATATGGTGA-ACTT-ATACATGCGGATTCAT
* *
47258913 AGAAGAAGATTAATAGATATGG-CAGA-TTCATACATGCGGATTCAT
1 AGAAGAAGATTCATAGATATGGTGA-ACTT-ATACATGCGGATTCAT
* * *
47258958 AGAAGAAGATTCATAAATATGGTGGACTAATACATGCG
1 AGAAGAAGATTCATAGATATGGTGAACTTATACATGCG
47258996 AACTGTGTTG
Statistics
Matches: 184, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
44 3 0.02
45 179 0.97
46 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (45 bp):
AGAAGAAGATTCATAGATATGGTGAACTTATACATGCGGATTCAT
Found at i:47258878 original size:14 final size:14
Alignment explanation
Indices: 47258861--47258972 Score: 80
Period size: 14 Copynumber: 7.6 Consensus size: 14
47258851 CATACATGTG
*
47258861 GATTCATAGAAGAA
1 GATTCATAGAAGCA
*
47258875 GATTAATAGATATGGCA
1 GATTCATAGA-A--GCA
* *
47258892 GATTCATACATGCA
1 GATTCATAGAAGCA
*
47258906 GATTCATAGAAGAA
1 GATTCATAGAAGCA
*
47258920 GATTAATAGATATGGCA
1 GATTCATAGA-A--GCA
* * *
47258937 GATTCATACATGCG
1 GATTCATAGAAGCA
*
47258951 GATTCATAGAAGAA
1 GATTCATAGAAGCA
47258965 GATTCATA
1 GATTCATA
47258973 AATATGGTGG
Statistics
Matches: 74, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
14 52 0.70
15 2 0.03
17 20 0.27
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.27
Consensus pattern (14 bp):
GATTCATAGAAGCA
Found at i:47264150 original size:10 final size:10
Alignment explanation
Indices: 47264121--47264150 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
47264111 TGGACTGGAC
47264121 TTTTTATTTG
1 TTTTTATTTG
47264131 TTTATTATTTG
1 TTT-TTATTTG
47264142 TTTTTATTT
1 TTTTTATTT
47264151 TATTATGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (10 bp):
TTTTTATTTG
Found at i:47264189 original size:2 final size:2
Alignment explanation
Indices: 47264182--47264208 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47264172 GGCTATTACA
47264182 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
47264209 ATTAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47266842 original size:20 final size:20
Alignment explanation
Indices: 47266819--47266857 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
47266809 TTTACTCTGA
47266819 TTTAA-TATAATATATATTTT
1 TTTAATTATAATAT-TATTTT
47266839 TTTAATTTATAATATTATT
1 TTTAA-TTATAATATTATT
47266858 AGTAACTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTATAATATTATTTT
Found at i:47269378 original size:2 final size:2
Alignment explanation
Indices: 47269371--47269396 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47269361 TTATTATTTG
47269371 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47269397 GCTTGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47272478 original size:19 final size:20
Alignment explanation
Indices: 47272450--47272489 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
47272440 CAATAAATGA
*
47272450 ATACATATGTAT-AAATAAT
1 ATACACATGTATAAAATAAT
47272469 ATACACATGTATAAAATAAT
1 ATACACATGTATAAAATAAT
47272489 A
1 A
47272490 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
ATACACATGTATAAAATAAT
Found at i:47272601 original size:25 final size:25
Alignment explanation
Indices: 47272551--47272602 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
47272541 AATAATAAAG
*
47272551 TAAATAAAAGAATAAACAAAGTAAA
1 TAAATAAAAGAATAAACAAAGAAAA
*
47272576 TAAATAAAAGAA-AAAGAATAGAAAA
1 TAAATAAAAGAATAAACAA-AGAAAA
47272601 TA
1 TA
47272603 GAAAGAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (25 bp):
TAAATAAAAGAATAAACAAAGAAAA
Found at i:47278154 original size:41 final size:40
Alignment explanation
Indices: 47278106--47278192 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
47278096 TCAAATACAT
*
47278106 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * * *
47278147 TTAAAACAATTCTTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
47278187 ATAAAA
1 TTAAAA
47278193 AGTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.66, C:0.08, G:0.01, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:47278243 original size:28 final size:27
Alignment explanation
Indices: 47278175--47278243 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
47278165 CAATACACAA
* * *
47278175 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATAAAATAAAAAGTAAATAT
* * *
47278202 ACTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAAAGTAAATAT
47278230 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
47278244 AAATATATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 7 0.22
28 18 0.56
29 7 0.22
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAAAGTAAATAT
Found at i:47285815 original size:21 final size:21
Alignment explanation
Indices: 47285786--47285827 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47285776 TGTGAAACAA
47285786 TGTGATCTGAACTCATGAGAT
1 TGTGATCTGAACTCATGAGAT
* **
47285807 TGTGGTCTGAGTTCATGAGAT
1 TGTGATCTGAACTCATGAGAT
47285828 AAGTGATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (21 bp):
TGTGATCTGAACTCATGAGAT
Found at i:47292390 original size:43 final size:43
Alignment explanation
Indices: 47292342--47292491 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
47292332 ATTACCGAGA
47292342 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
** *
47292385 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCAT--TGTAT
* * * * * *
47292428 TATGATTTCTTGTAAGACCCTGTTTGGGATAGTGGCATTG-AT
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
* *
47292470 ATGTGATAACATGTAAGTCCAT
1 -TGTGATTACATGTAAGACCAT
47292492 ATCTAGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
43 80 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
Found at i:47298185 original size:14 final size:14
Alignment explanation
Indices: 47298154--47298185 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
47298144 TGCCACACGG
47298154 GTGTGTGCCTGGCC
1 GTGTGTGCCTGGCC
47298168 GTGTG-G-CTGGCC
1 GTGTGTGCCTGGCC
47298180 GTGTGT
1 GTGTGT
47298186 AAGCCACGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.65
13 1 0.06
14 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.47, T:0.31
Consensus pattern (14 bp):
GTGTGTGCCTGGCC
Found at i:47304197 original size:32 final size:32
Alignment explanation
Indices: 47304148--47304213 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
47304138 TGTCCAAAAA
*
47304148 CTTAGAAATTGAGTAAATTACTCTTTAAGGAC
1 CTTAAAAATTGAGTAAATTACTCTTTAAGGAC
47304180 CTTAAAAATTTGA-TAAATTACTCTTTAAGGAC
1 CTTAAAAA-TTGAGTAAATTACTCTTTAAGGAC
47304212 CT
1 CT
47304214 CTAATTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (32 bp):
CTTAAAAATTGAGTAAATTACTCTTTAAGGAC
Found at i:47310938 original size:94 final size:94
Alignment explanation
Indices: 47310777--47310987 Score: 388
Period size: 94 Copynumber: 2.2 Consensus size: 94
47310767 GCATTGTTGG
*
47310777 GATTA-CCAGTCCAGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTG
1 GATTACCCA-TCCAGGCTAAATCCCTTTTAACAACAATTGCTCTCATGAGCTTGGATCTGAATTG
47310841 CCAGTCCAGGCTAAATTCAGTCCTCAATCA
65 CCAGTCCAGGCTAAATTCAGTCCTCAATCA
47310871 GATTACCCATCCAGGCTAAATCCCTTTTAACAACAATTGCTCTCATGAGCTTGGATCTGAATTGC
1 GATTACCCATCCAGGCTAAATCCCTTTTAACAACAATTGCTCTCATGAGCTTGGATCTGAATTGC
47310936 CAGTCCAGGCTAAATTCAGTCCTCAATCA
66 CAGTCCAGGCTAAATTCAGTCCTCAATCA
*
47310965 GATTACCCATCCGGGCTAAATCC
1 GATTACCCATCCAGGCTAAATCC
47310988 TAATTGCACC
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
94 111 0.97
95 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (94 bp):
GATTACCCATCCAGGCTAAATCCCTTTTAACAACAATTGCTCTCATGAGCTTGGATCTGAATTGC
CAGTCCAGGCTAAATTCAGTCCTCAATCA
Found at i:47314919 original size:40 final size:39
Alignment explanation
Indices: 47314830--47315013 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
47314820 CGAATGATGA
* * *
47314830 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAGCTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTACTA-AT
* *
47314870 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47314909 CCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACCAAAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAT
* * *
47314949 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
*
47314989 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47315014 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:47314968 original size:79 final size:81
Alignment explanation
Indices: 47314829--47315011 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
47314819 TCGAATGATG
* * *
47314829 ACCGGGCTAAGTCCCGAAGGC-TTGGTGCTAGCTGACTATATCCAGACTAAGATCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGCTGACCAAATCCAGACTAAGATCCGAAGGCATT
*
47314893 TGTGCGAGTTACTA-A
66 TGTGCGAATTACTATA
* * * **
47314908 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAG-TTACCAAATCCGGGTTAAG-TCCCGAAGGCA
1 -ACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGCTGACCAAATCCAGACTAAGAT-CCGAAGGCA
47314970 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
*
47314988 ACCGGGCTATGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATT
47315012 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (81 bp):
ACCGGGCTAAGTCCCGAAGGCATTGGTGCGAGCTGACCAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:47315027 original size:40 final size:40
Alignment explanation
Indices: 47314910--47315032 Score: 101
Period size: 40 Copynumber: 3.1 Consensus size: 40
47314900 GTTACTAATC
* ** *
47314910 CCGGGCTAAG-CCCGAAGGCATTGGTGCG-AGTTACCA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAAG-TACTATAA
* ** *
47314948 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGTACTATAA
* *
47314989 CCGGGCTATGTCCCGAAGGCATTTGAACG-AGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGTA-CTATAA
47315029 CCGG
1 CCGG
47315033 TTAAATTCCG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
39 12 0.17
40 55 0.79
41 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGTACTATAA
Found at i:47315035 original size:79 final size:79
Alignment explanation
Indices: 47314882--47315046 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
47314872 AGACTAAGAT
* * **
47314882 CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACCAA
1 CCGAAGGCATTTGTGCGAATTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAA
*
47314947 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
47314961 CCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAATTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
47315024 TATATCC-GGTTAAATT
63 CAAATCCGGGTTAAATC
47315040 CCGAAGG
1 CCGAAGG
47315047 TACATGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAATTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACCAA
ATCCGGGTTAAATC
Found at i:47317899 original size:41 final size:41
Alignment explanation
Indices: 47317854--47317935 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
47317844 CTTGTCTCTG
*
47317854 AGCAACTTGATATATCTATAGTAGAAATCTTGTTCTTAGGC
1 AGCAACTTGATATATCTACAGTAGAAATCTTGTTCTTAGGC
*
47317895 AGCAACTTGATATATCTGCAGTAGAAATCTTGTTCTTAGGC
1 AGCAACTTGATATATCTACAGTAGAAATCTTGTTCTTAGGC
47317936 TTTGCATCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (41 bp):
AGCAACTTGATATATCTACAGTAGAAATCTTGTTCTTAGGC
Found at i:47320441 original size:38 final size:38
Alignment explanation
Indices: 47320399--47320490 Score: 184
Period size: 38 Copynumber: 2.4 Consensus size: 38
47320389 CCATCTCTGT
47320399 CCAACCCTACACTCCATGTGGGGATATAATCAACCCAC
1 CCAACCCTACACTCCATGTGGGGATATAATCAACCCAC
47320437 CCAACCCTACACTCCATGTGGGGATATAATCAACCCAC
1 CCAACCCTACACTCCATGTGGGGATATAATCAACCCAC
47320475 CCAACCCTACACTCCA
1 CCAACCCTACACTCCA
47320491 AGTAGTACCG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.32, C:0.40, G:0.11, T:0.17
Consensus pattern (38 bp):
CCAACCCTACACTCCATGTGGGGATATAATCAACCCAC
Found at i:47325780 original size:40 final size:40
Alignment explanation
Indices: 47325723--47325919 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
47325713 TCGAATGATG
* * *
47325723 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
47325763 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
47325803 TCCGGACTAA-ATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
47325842 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
47325882 TCCGAGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
47325920 TAACCGGGCT
Statistics
Matches: 148, Mismatches: 4, Indels: 10
0.91 0.02 0.06
Matches are distributed among these distances:
39 40 0.27
40 98 0.66
41 10 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47325855 original size:79 final size:80
Alignment explanation
Indices: 47325734--47325919 Score: 297
Period size: 79 Copynumber: 2.3 Consensus size: 80
47325724 CCGGGCTAAG
* *
47325734 TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA
1 TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA
47325798 CTAAATCCG-GACTAAA
65 CTAAATCCGAGA-TAAA
47325814 T-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
*
47325878 TAAATCCGAGATAAG
66 TAAATCCGAGATAAA
*
47325893 TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCCGAAGGCATTTGTGCGAGTTACTA
47325920 TAACCGGGCT
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
79 65 0.66
80 34 0.34
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (80 bp):
TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
TAAATCCGAGATAAA
Found at i:47325936 original size:40 final size:39
Alignment explanation
Indices: 47325723--47325947 Score: 285
Period size: 40 Copynumber: 5.6 Consensus size: 39
47325713 TCGAATGATG
* * *
47325723 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
47325763 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
47325803 TCCGGACTAAATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
47325842 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
47325882 TCCGAGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCG-GACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
47325923 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
47325948 AACTAGTAGC
Statistics
Matches: 169, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
39 40 0.24
40 117 0.69
41 12 0.07
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47325965 original size:80 final size:80
Alignment explanation
Indices: 47325730--47325950 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 80
47325720 ATGTCCGGGC
* **
47325730 TAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTAAATCCGGACTAAGATCCGAAGGCATTTGAACG
47325793 AGTTACTAAATCCG-GA
64 AGTTACTAAATCCGAGA
* * **
47325809 CTAAAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 -TAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGA
47325873 GTTACTAAATCCGAGA
65 GTTACTAAATCCGAGA
* * *
47325889 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAAC
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAAC
47325951 TAGTAGCTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
79 65 0.52
80 59 0.47
81 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
TTACTAAATCCGAGA
Found at i:47325980 original size:119 final size:119
Alignment explanation
Indices: 47325723--47325950 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 119
47325713 TCGAATGATG
*
47325723 TCCGGGCTAAG-TCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGAT-CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
* **
47325787 TGTGCGAGTTACTAAATCCGGACTAAATCCGAAGGCATTTGTGCGAGTTACTAAA
65 TGTGCGAGCTACTAAATCCGGACTAAATCCGAAGGCATTTGAACGAGTTACTAAA
* *
47325842 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGAGA-TAAG-TCCCGAAGGCA
1 TCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTGACTAAATCCG-GACTAAGAT-CCGAAGGCA
* ** *
47325904 TTTGTGCGAGCTACTATAA-CCGGGCTATGTCCCGAAGGTATTTGAAC
63 TTTGTGCGAGCTACTA-AATCCGGACTAAAT-CCGAAGGCATTTGAAC
47325951 TAGTAGCTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
118 1 0.01
119 67 0.72
120 25 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAATCCGGACTAAATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:47333851 original size:110 final size:111
Alignment explanation
Indices: 47333658--47333876 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 111
47333648 CTCAAGTATC
47333658 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
1 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
*
47333723 CACTCGTTGATTTAAAATCGTAATTTTG-ATATTTTGTAAAATGTA
66 CACTCGTTGATTTAAAATCGTAATTTTGAATATCTTGTAAAATGTA
47333768 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
1 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
47333833 CACTCGTTGATTTAAAATCGTAATTTTGACATATCTTGTAAAAT
66 CACTCGTTGATTTAAAATCGTAATTTTGA-ATATCTTGTAAAAT
47333877 ATCAATTAAA
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
110 93 0.88
112 13 0.12
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (111 bp):
AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAATCT
CACTCGTTGATTTAAAATCGTAATTTTGAATATCTTGTAAAATGTA
Found at i:47336017 original size:35 final size:35
Alignment explanation
Indices: 47335968--47336062 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
47335958 AAATTCAACA
* * * *
47335968 GGCATGCTTTACATGCGAATCAAAACCAGTATAGT
1 GGCATGCTTAACATGTGAATCAAAACCAATATAAT
* *
47336003 GGCATGCTTAACATGTGAATCAGAATCAATATAAT
1 GGCATGCTTAACATGTGAATCAAAACCAATATAAT
*
47336038 GGCGTGCTTAACATGTGAATCAAAA
1 GGCATGCTTAACATGTGAATCAAAA
47336063 TATCAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (35 bp):
GGCATGCTTAACATGTGAATCAAAACCAATATAAT
Found at i:47339023 original size:22 final size:22
Alignment explanation
Indices: 47338979--47339024 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
47338969 TCCATTATCC
*
47338979 ATAATAATAATAAAAAAATAAA
1 ATAATAATAATAAAAAAACAAA
* **
47339001 ATAATAATGATAACCAAACAAA
1 ATAATAATAATAAAAAAACAAA
47339023 AT
1 AT
47339025 TCTAATCCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAATAATAATAAAAAAACAAA
Done.