Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 123 of 362
Found at i:40638448 original size:141 final size:141
Alignment explanation
Indices: 40638148--40638451 Score: 360
Period size: 141 Copynumber: 2.1 Consensus size: 141
40638138 TGGCCACAAT
* * *
40638148 ATATATACACATCTCATACATATCTCACATTAGCCATTCGGCTTCGCCACATATATACACTTCCA
1 ATATATACACAT-TC--ACATTTATCACATTAGCCATTCGGCTTCACCACATATATACACTTCCA
* * *
40638213 CGTTTATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
63 CATTCATCACATTAGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
**
40638278 TTCGGCCTTATCAC
128 TTAAGCCTTATCAC
* * ** * * * *
40638292 ACATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTT-ATCACATATATGCA-TGTTCAC
1 ATATATACACATTCACATTTATCACATTAGCCATTCGG-CTTCACCACATATATACACT-TCCAC
* * * *
40638355 ATTCATCACATTGGCCATTCGGCCTTATCCCACATATGCATGTTCTCATTCATCACATTGGCCAT
64 ATTCATCACATTAGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCAT
*
40638420 TAAGCCTTATCTC
129 TAAGCCTTATCAC
40638433 ATATATACACATTCACATT
1 ATATATACACATTCACATT
40638452 CATCTCATGA
Statistics
Matches: 133, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
140 1 0.01
141 119 0.89
142 3 0.02
143 2 0.02
144 8 0.06
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (141 bp):
ATATATACACATTCACATTTATCACATTAGCCATTCGGCTTCACCACATATATACACTTCCACAT
TCATCACATTAGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTA
AGCCTTATCAC
Found at i:40644254 original size:35 final size:35
Alignment explanation
Indices: 40644208--40644279 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
40644198 GCTTACTTTG
40644208 TCTGTGTATTTGCATTGTTTTATAGATATTGAAGC
1 TCTGTGTATTTGCATTGTTTTATAGATATTGAAGC
40644243 TCTGTGTATTTGCATTGTTTTATAGATATTGAAGC
1 TCTGTGTATTTGCATTGTTTTATAGATATTGAAGC
40644278 TC
1 TC
40644280 CTATAAGCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (35 bp):
TCTGTGTATTTGCATTGTTTTATAGATATTGAAGC
Found at i:40647623 original size:17 final size:18
Alignment explanation
Indices: 40647590--40647624 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
40647580 AATATAAATC
*
40647590 ACATTCCATACAAACACA
1 ACATTCAATACAAACACA
40647608 ACATTCAATA-AAACACA
1 ACATTCAATACAAACACA
40647625 TTTACATGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (18 bp):
ACATTCAATACAAACACA
Found at i:40649601 original size:28 final size:28
Alignment explanation
Indices: 40649569--40649636 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
40649559 AATGAGATTG
*
40649569 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
40649597 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
40649625 GCACTAAGTGTG
1 GCACTAAGTGTG
40649637 TGGACTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:40653888 original size:48 final size:48
Alignment explanation
Indices: 40653712--40653870 Score: 237
Period size: 48 Copynumber: 3.3 Consensus size: 48
40653702 TGTGTGATCT
*
40653712 CATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGTGATCC
1 CATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAAGTG-G-TCC
* * * *
40653762 AATGTAAGACCATGTTTAGAACATGGCATTGGCATCGATAAGTGGTCT
1 CATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAAGTGGTCC
* *
40653810 CATGTAAGACCATGTCTGGGACATGGCATTGGTATCGATAAGTGGTCC
1 CATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAAGTGGTCC
40653858 CATGTAAGACCAT
1 CATGTAAGACCAT
40653871 ATACGGGATA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 57 0.58
49 1 0.01
50 40 0.41
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
CATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATAAGTGGTCC
Found at i:40663885 original size:89 final size:89
Alignment explanation
Indices: 40663734--40663922 Score: 335
Period size: 89 Copynumber: 2.1 Consensus size: 89
40663724 TTTATTATAC
40663734 ATTTAACACTTAATGTTGCATGAACTGTATAATTGCTTTTGCGCATATTATTGATGTTGTCCGAC
1 ATTTAACACTTAATGTTGCATGAACTGTATAATTGCTTTTGCGCATATTATTGATGTTGTCCGAC
40663799 AAAGATTGGAGGTGATGGAAGCTG
66 AAAGATTGGAGGTGATGGAAGCTG
* *
40663823 ATTTAACACTTAATGTTGCATGAGCTGTATAATTGCTTTTGTGCATATTATTGATGTTGTCCGAC
1 ATTTAACACTTAATGTTGCATGAACTGTATAATTGCTTTTGCGCATATTATTGATGTTGTCCGAC
*
40663888 AAAGATTTGAGGTGATGGAAGCTG
66 AAAGATTGGAGGTGATGGAAGCTG
*
40663912 ATTGAAC-CTTA
1 ATTTAACACTTA
40663923 GGAATACTTA
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 4 0.04
89 92 0.96
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (89 bp):
ATTTAACACTTAATGTTGCATGAACTGTATAATTGCTTTTGCGCATATTATTGATGTTGTCCGAC
AAAGATTGGAGGTGATGGAAGCTG
Found at i:40664037 original size:48 final size:48
Alignment explanation
Indices: 40663975--40664263 Score: 232
Period size: 48 Copynumber: 6.0 Consensus size: 48
40663965 AGATCCTGTA
* * * * *
40663975 TAAGACCATATCTAGGATATGGCATCGGTATCGTTATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * * **
40664023 TAAGACCATGTCTAGGACATGGCATTGGCATCAATATGAGAACATCGGG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATC-CCATG
* * * *
40664072 TAAGACCATAG-CTATG-C-T---ATCGGCTTCGATATGTATGATCCTATG
1 TAAGACCAT-GTCTAGGACATGGCATTGGCATCGATATG--TGATCCCATG
*
40664117 TAAGACCATGTC-AGGGACATGGAATTGGCATCGATATGTGTGATCCCATG
1 TAAGACCATGTCTA-GGACATGGCATTGGCATCGATA--TGTGATCCCATG
* * * * *
40664167 TAAGACCATGTCTGGGACATGGCATTGGCATCGATAAGGGGTCCCACG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * * *
40664215 TAAGACTATGTCTGGGACATGGCATTGACATCGATAAGTGGTCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
40664263 T
1 T
40664264 TTTGGCACCC
Statistics
Matches: 192, Mismatches: 35, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
44 14 0.07
45 12 0.06
46 4 0.02
47 2 0.01
48 89 0.46
49 15 0.08
50 54 0.28
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:40668773 original size:21 final size:21
Alignment explanation
Indices: 40668735--40668779 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
40668725 ACCTGCTAGC
*
40668735 TTTTAACTTAAATTTACCCTG
1 TTTTAACTTAAATATACCCTG
*
40668756 TTTTAACCTTAAA-ATACCTTG
1 TTTTAA-CTTAAATATACCCTG
40668777 TTT
1 TTT
40668780 AAAATCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTTAACTTAAATATACCCTG
Found at i:40670361 original size:44 final size:45
Alignment explanation
Indices: 40670311--40670410 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 45
40670301 CTAGACATGG
40670311 TCTTACACTAAC-ACATCTCGTA-G-CAGATGCATGTCCCAAACATA
1 TCTTACACTAACTACATCTC-TAGGCCA-ATGCATGTCCCAAACATA
* * * *
40670355 TCTTACACTAGCTTACATCTCTAGGCCAATTCATGTCCCAGACATG
1 TCTTACACTAAC-TACATCTCTAGGCCAATGCATGTCCCAAACATA
40670401 TCTTACACTA
1 TCTTACACTA
40670411 GCACTCGTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
44 11 0.23
45 2 0.04
46 33 0.69
47 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (45 bp):
TCTTACACTAACTACATCTCTAGGCCAATGCATGTCCCAAACATA
Found at i:40681553 original size:46 final size:46
Alignment explanation
Indices: 40681503--40681626 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
40681493 TATCGCGTAG
* * *
40681503 CCGATGCATGTTCTAGACATGTCTAACACTAGC-TTACGTCTCGAA-A
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTC-AATA
* * *
40681549 CCGATGTATGTCCTAGACATGTCTTATACTAGCACTCGTCTCAATT
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATA
40681595 CCGATGCTATGTCCTAGACATGGTCTTACACT
1 CCGATGC-ATGTCCTAGACAT-GTCTTACACT
40681627 GGCTCCACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.03
46 41 0.62
47 14 0.21
48 9 0.14
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (46 bp):
CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATA
Found at i:40682999 original size:27 final size:27
Alignment explanation
Indices: 40682969--40683321 Score: 413
Period size: 27 Copynumber: 13.1 Consensus size: 27
40682959 GGGCACAATC
*
40682969 GTCATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
40682996 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
40683023 GTCATTTTACCCTACAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * * *
40683050 GTTATTTTACACTATAAGTGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
40683077 GTCGTTTTACCCTATAGAGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * *
40683104 ATCATTTTACCTTATAAGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
40683131 GTCATTTT-CCCT-CTAGGGGTATTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
*
40683157 GTCATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* ** *
40683184 GTTATTTTACAGTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
40683211 GTCATTTTACCCTATAGGGGTATCACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
40683238 ATCATTTTACCCTACAGGGGTATCACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
40683265 GTCATTTTACCCTACAGGAGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
40683292 ATCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
40683319 GTC
1 GTC
40683322 CAATAACGAC
Statistics
Matches: 274, Mismatches: 49, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.08
27 252 0.92
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:40684910 original size:28 final size:28
Alignment explanation
Indices: 40684868--40684932 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
40684858 TCAGTGTACG
*
40684868 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
40684896 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
40684924 AAATATTGA
1 AAATATTGA
40684933 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:40685049 original size:39 final size:39
Alignment explanation
Indices: 40685005--40685123 Score: 161
Period size: 39 Copynumber: 3.1 Consensus size: 39
40684995 GACTTTATAA
40685005 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* * * **
40685044 TGGTGTTATATCCGGGTTAAGCCCCAAAGGCATTCAT-C
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
40685082 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTTGTGC
40685121 TGG
1 TGG
40685124 AATTGTATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 21 0.31
39 46 0.69
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
Found at i:40685133 original size:77 final size:76
Alignment explanation
Indices: 40685005--40685219 Score: 218
Period size: 78 Copynumber: 2.8 Consensus size: 76
40684995 GACTTTATAA
* ** *
40685005 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTATATCCGGGTTAAGCCCCA
1 TGGTGTTATATCCGGGCTAAGTCCCGCAGGC-TTTGTGCTGGAATTGTATCCGGGTTAAGCCCCA
40685070 AAGGCATTCAT-C
65 AAGGC-TTCATGC
* *
40685082 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGCCC
1 TGGTGTTATATCCGGGCT-AAGTCCCGCAGGCTTTGTGCTGGAATTGTATCCGG-GTTAAGCCCC
** *
40685147 GCAGGCTTCGTGC
64 AAAGGCTTCATGC
** * * * *
40685160 TGGAATTGTATCCGGACTTAAGAT-CCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTAA
1 TGGTGTTATATCCGGGC-TAAG-TCCCGCAGGCTTTGTGCTGGAATTGTATCCGGG-TTAA
40685220 AGACCCGCAC
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
77 41 0.35
78 73 0.63
79 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.29
Consensus pattern (76 bp):
TGGTGTTATATCCGGGCTAAGTCCCGCAGGCTTTGTGCTGGAATTGTATCCGGGTTAAGCCCCAA
AGGCTTCATGC
Found at i:40685240 original size:40 final size:40
Alignment explanation
Indices: 40685090--40685265 Score: 225
Period size: 39 Copynumber: 4.5 Consensus size: 40
40685080 TCTGGTGTTA
* *
40685090 TATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* *
40685129 TATCCGGACTT-AAGGCCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * *
40685168 TATCCGGACTT-AAGATCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * *
40685207 TATCCGGGCTTAAAGACCCGCACGCTAT-ATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG
40685247 TATCCGGGCTTAAAGACCC
1 TATCCGGGCTTAAAGACCC
40685266 ATAGGCTTTG
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 80 0.65
40 42 0.34
41 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:40691003 original size:27 final size:27
Alignment explanation
Indices: 40690972--40691295 Score: 443
Period size: 27 Copynumber: 12.0 Consensus size: 27
40690962 CATAATCATT
*
40690972 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
40690999 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
**
40691026 ATTTTACCCTTTAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
40691053 ATTTTACCCTATAGGGGAATTATGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
40691080 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* **
40691107 ATTTTACCCTATAGGGGTATTATAGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* *
40691134 ATTTTACCTTACAGGGGTATTACGGTT
1 ATTTTACCCTACAGGGGTATTACGGTC
40691161 ATTTT-CCCTACAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
40691187 ATTTTACCCCACAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * *
40691214 ATTTTACCCTACAGGGGAATTACTGCC
1 ATTTTACCCTACAGGGGTATTACGGTC
* * * *
40691241 ATTTTACCCTATAGAGGAATTACGATC
1 ATTTTACCCTACAGGGGTATTACGGTC
*
40691268 ATTTTACCCTATAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGTATTACGGTC
40691295 A
1 A
40691296 AATAACGACC
Statistics
Matches: 261, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
26 24 0.09
27 237 0.91
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTACGGTC
Found at i:40693343 original size:79 final size:80
Alignment explanation
Indices: 40693245--40693427 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
40693235 TACTTGTTCA
* * *
40693245 AATGCATTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
40693308 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
40693325 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
40693389 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
40693404 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40693428 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 27 0.30
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:40693427 original size:40 final size:40
Alignment explanation
Indices: 40693243--40693427 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
40693233 GCTACTTGTT
* * *
40693243 CAAATGCATTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40693283 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
40693323 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
40693362 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
40693403 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40693428 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:40699994 original size:24 final size:26
Alignment explanation
Indices: 40699938--40699995 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
40699928 TCCAGAACGT
*
40699938 GAGAAGATAAGCAAGAGAGTGATAAA
1 GAGAAGATAAGCAAGAGAGTGAGAAA
40699964 GAGGAAGA-AAGCAAGA-A-TGAGAAA
1 GA-GAAGATAAGCAAGAGAGTGAGAAA
40699988 GGAGAAGA
1 -GAGAAGA
40699996 GGAAAGGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 11 0.38
25 3 0.10
26 10 0.34
27 5 0.17
ACGTcount: A:0.55, C:0.03, G:0.34, T:0.07
Consensus pattern (26 bp):
GAGAAGATAAGCAAGAGAGTGAGAAA
Found at i:40703680 original size:21 final size:22
Alignment explanation
Indices: 40703636--40703682 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
40703626 TTTCCATGTT
40703636 TGGTTTCAGTTATGTTTGCTTA
1 TGGTTTCAGTTATGTTTGCTTA
*
40703658 TGGTTTGAGTTAT-TTTGAC-TA
1 TGGTTTCAGTTATGTTTG-CTTA
40703679 TGGT
1 TGGT
40703683 ATTTTATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.15, C:0.06, G:0.26, T:0.53
Consensus pattern (22 bp):
TGGTTTCAGTTATGTTTGCTTA
Found at i:40706484 original size:26 final size:26
Alignment explanation
Indices: 40706445--40706508 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
40706435 ACTTTAAATG
40706445 CTCACACAAGCTATGAAATGGACCTA
1 CTCACACAAGCTATGAAATGGACCTA
* *
40706471 CTTACACGAGCTATGAAATGGACCTA
1 CTCACACAAGCTATGAAATGGACCTA
*
40706497 CTCACACCAGCT
1 CTCACACAAGCT
40706509 GTAAGTCAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (26 bp):
CTCACACAAGCTATGAAATGGACCTA
Found at i:40712781 original size:27 final size:26
Alignment explanation
Indices: 40712728--40712811 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
40712718 TCCAAAACTT
* *
40712728 ATCTGCGAACATAGTTTACGAAAACAC
1 ATCTGCGAACATAGTTCAC-CAAACAC
* *
40712755 ATCTGCAAACATAGTTCGCCAATACAC
1 ATCTGCGAACATAGTTCACCAA-ACAC
*
40712782 ATCTGTGAACATAGTTCACCAAATCAC
1 ATCTGCGAACATAGTTCACCAAA-CAC
40712809 ATC
1 ATC
40712812 GAAGGTAAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.06
27 45 0.94
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (26 bp):
ATCTGCGAACATAGTTCACCAAACAC
Found at i:40713308 original size:42 final size:42
Alignment explanation
Indices: 40713215--40713319 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
40713205 GGGTCACATG
* * *
40713215 CCCGTGTGAACAGGCCGTGTGCCTTACACGGCTATCAGACACG
1 CCCGTGT-CACAGGCCGTGTGCCTCACACGGCTATCAGACACA
** * *
40713258 CCTATGTCACAGGTCGTGTGCCTCACACGGTTATCAGACACA
1 CCCGTGTCACAGGCCGTGTGCCTCACACGGCTATCAGACACA
*
40713300 CCCGTGTCACAAGCCGTGTG
1 CCCGTGTCACAGGCCGTGTG
40713320 GAAATAGGGC
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 46 0.90
43 5 0.10
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (42 bp):
CCCGTGTCACAGGCCGTGTGCCTCACACGGCTATCAGACACA
Found at i:40714962 original size:46 final size:48
Alignment explanation
Indices: 40714840--40714969 Score: 146
Period size: 46 Copynumber: 2.8 Consensus size: 48
40714830 TGTAACCCGC
40714840 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * *
40714890 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
40714933 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40714970 TGCTCAACCA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 1 0.01
45 2 0.03
46 28 0.42
47 28 0.42
48 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:40718033 original size:13 final size:13
Alignment explanation
Indices: 40718015--40718077 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
40718005 AGTTCTTCAT
40718015 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
40718028 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
40718041 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
40718054 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
40718067 TGC-TTTGAAAA
1 TGCTTTTGAAAA
40718078 AATTTAAGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
12 7 0.16
13 37 0.84
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:40728779 original size:40 final size:40
Alignment explanation
Indices: 40728686--40728943 Score: 364
Period size: 40 Copynumber: 6.5 Consensus size: 40
40728676 AAGTCAAGTA
* * *
40728686 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
40728724 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
40728764 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
40728804 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
40728844 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
40728884 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
40728925 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
40728944 TTATCATCCA
Statistics
Matches: 201, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.08
40 144 0.72
41 24 0.12
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:40732596 original size:15 final size:15
Alignment explanation
Indices: 40732573--40732623 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
40732563 ACTTGCTAAC
40732573 AAATCAAACATTTAG
1 AAATCAAACATTTAG
* *
40732588 AAATGAAAC-TTGCTAAC
1 AAATCAAACATT--T-AG
40732605 AAATCAAACATTTAG
1 AAATCAAACATTTAG
40732620 AAAT
1 AAAT
40732624 GAACTCTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 2 0.07
15 13 0.46
16 2 0.07
17 9 0.32
18 2 0.07
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (15 bp):
AAATCAAACATTTAG
Found at i:40732603 original size:32 final size:32
Alignment explanation
Indices: 40732562--40732626 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
40732552 GCTCAACTTT
40732562 AACTTGCTAACAAATCAAACATTTAGAAATGA
1 AACTTGCTAACAAATCAAACATTTAGAAATGA
40732594 AACTTGCTAACAAATCAAACATTTAGAAATGA
1 AACTTGCTAACAAATCAAACATTTAGAAATGA
40732626 A
1 A
40732627 CTCTGAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (32 bp):
AACTTGCTAACAAATCAAACATTTAGAAATGA
Found at i:40732613 original size:17 final size:17
Alignment explanation
Indices: 40732562--40732613 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
40732552 GCTCAACTTT
40732562 AACTTGCTAACAAATCA
1 AACTTGCTAACAAATCA
* *
40732579 AACATT--T-AGAAATGA
1 AAC-TTGCTAACAAATCA
40732594 AACTTGCTAACAAATCA
1 AACTTGCTAACAAATCA
40732611 AAC
1 AAC
40732614 ATTTAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.07
15 9 0.33
16 2 0.07
17 12 0.44
18 2 0.07
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (17 bp):
AACTTGCTAACAAATCA
Found at i:40735519 original size:50 final size:48
Alignment explanation
Indices: 40735407--40735585 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 48
40735397 GGTGTAATGT
* * * * *
40735407 CGATGCCATGTCCCAGACATGGTCTTGCACTG-ACTATCGAAATCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCACT-T-GATATCCATGC
* * *
40735456 CGACGCCATGTCCCGGACATAGTCTTACACTAGCACTTAGATATCCATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCACTT-GATATCCATGC
* * * *
40735506 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCT-CTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CACTTGATATCCATGC
*
40735554 CGATGCCATGTCCTAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
40735586 ATACATCTCG
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 38 0.35
49 28 0.25
50 41 0.37
51 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCACTTGATATCCATGC
Found at i:40735637 original size:46 final size:46
Alignment explanation
Indices: 40735552--40735678 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
40735542 CTCTATACGT
*
40735552 GCCGATGCCATG-TCCTAGACATGGTCTTACACT-G-ATACATCTCGTA-
1 GCCGATG-CATGTTCC-AAACAT-GTCTTACACTAGCATACATCTCG-AG
*
40735598 GCCGATGCATGTTCCAAACATGTCTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTTCCAAACATGTCTTACACTAGCATACATCTCGAG
*
40735644 GCCGATGCATGTCCCAAACATGTCTTACACTAGCA
1 GCCGATGCATGTTCCAAACATGTCTTACACTAGCA
40735679 CACAAATAAC
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
44 10 0.14
45 11 0.15
46 52 0.71
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTTCCAAACATGTCTTACACTAGCATACATCTCGAG
Found at i:40736608 original size:45 final size:45
Alignment explanation
Indices: 40736544--40736633 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
40736534 AACACTTTGA
*
40736544 CCATTTAAGTTCTTTGTCTCATGGCTGGCCAAGCTAAAATCCAAG
1 CCATTTAAGTTCTTTGTCTCATGGCTAGCCAAGCTAAAATCCAAG
40736589 CCATTTAAGTTCTTTGTCTCATGGCTAGCCAAGCTAAAATCCAAG
1 CCATTTAAGTTCTTTGTCTCATGGCTAGCCAAGCTAAAATCCAAG
40736634 GGTCTATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
CCATTTAAGTTCTTTGTCTCATGGCTAGCCAAGCTAAAATCCAAG
Found at i:40743272 original size:27 final size:27
Alignment explanation
Indices: 40743231--40743434 Score: 218
Period size: 26 Copynumber: 7.7 Consensus size: 27
40743221 TCTTTAACAT
* *
40743231 AGATTAACCATAAAGGCTTCCTTTTAG
1 AGATTAGCCACAAAGGCTTCCTTTTAG
* *
40743258 ATATTAGCCACAAAGGCTTCCTTTTAA
1 AGATTAGCCACAAAGGCTTCCTTTTAG
* * * * *
40743285 AGA-TAGCTATAAAGGCTTTCTTTCAA
1 AGATTAGCCACAAAGGCTTCCTTTTAG
*
40743311 AGA-TAGCCACAAAGGCGTCCTTTTAG
1 AGATTAGCCACAAAGGCTTCCTTTTAG
*
40743337 AGATTAGCCACAAAGGCTTCCTTTCAG
1 AGATTAGCCACAAAGGCTTCCTTTTAG
* * **
40743364 AG-CTAGCCACAAAAGAGTCCTTTTAG
1 AGATTAGCCACAAAGGCTTCCTTTTAG
* *
40743390 AGATTAGCCATAAAGGCTTCCTTTCAG
1 AGATTAGCCACAAAGGCTTCCTTTTAG
*
40743417 AGA-TAGCCACAAAAGCTT
1 AGATTAGCCACAAAGGCTT
40743435 TCTTATGATG
Statistics
Matches: 145, Mismatches: 30, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
26 76 0.52
27 69 0.48
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (27 bp):
AGATTAGCCACAAAGGCTTCCTTTTAG
Found at i:40743353 original size:53 final size:53
Alignment explanation
Indices: 40743231--40743429 Score: 274
Period size: 53 Copynumber: 3.8 Consensus size: 53
40743221 TCTTTAACAT
* * * * *
40743231 AGATTAACCATAAAGGCTTCCTTTTAGATATTAGCCACAAAGGCTTCCTTTTAA
1 AGATTAGCCATAAAGGCTTCCTTTCAGAGA-TAGCCACAAAGGCGTCCTTTTAG
* * *
40743285 AGA-TAGCTATAAAGGCTTTCTTTCAAAGATAGCCACAAAGGCGTCCTTTTAG
1 AGATTAGCCATAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCGTCCTTTTAG
* * * *
40743337 AGATTAGCCACAAAGGCTTCCTTTCAGAGCTAGCCACAAAAGAGTCCTTTTAG
1 AGATTAGCCATAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCGTCCTTTTAG
40743390 AGATTAGCCATAAAGGCTTCCTTTCAGAGATAGCCACAAA
1 AGATTAGCCATAAAGGCTTCCTTTCAGAGATAGCCACAAA
40743430 AGCTTTCTTA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
52 24 0.19
53 100 0.79
54 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (53 bp):
AGATTAGCCATAAAGGCTTCCTTTCAGAGATAGCCACAAAGGCGTCCTTTTAG
Found at i:40745696 original size:40 final size:40
Alignment explanation
Indices: 40745639--40745900 Score: 363
Period size: 40 Copynumber: 6.6 Consensus size: 40
40745629 GACGATAACG
40745639 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
40745679 GGGCTACGTCCCAAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
40745719 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTAATTCA
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
40745759 GGGCTAAGTCTCGAAGGCATTTGTG-TGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAATTCC
* *
40745799 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* *
40745839 GGGCTAAGTCCCGAAGGCA-TTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTAAT-TCC
40745878 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
40745901 AGCGAGTAGC
Statistics
Matches: 203, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
39 37 0.18
40 166 0.82
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:40753798 original size:40 final size:40
Alignment explanation
Indices: 40753743--40754003 Score: 406
Period size: 40 Copynumber: 6.6 Consensus size: 40
40753733 CGGGATAACG
40753743 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
40753783 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
40753823 GGGCTAAGT-CCGAAGGCATTTGTGCTAGTGA-TAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
40753861 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
* *
40753901 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
* *
40753941 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTAAT-TCC
40753981 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
40754004 AGCGAGTAGC
Statistics
Matches: 213, Mismatches: 4, Indels: 8
0.95 0.02 0.04
Matches are distributed among these distances:
38 16 0.08
39 44 0.21
40 151 0.71
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:40753951 original size:118 final size:120
Alignment explanation
Indices: 40753743--40754010 Score: 411
Period size: 118 Copynumber: 2.2 Consensus size: 120
40753733 CGGGATAACG
*
40753743 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
* * *
40753808 CTAGTGACTAATTCCGGGCTAAGT-CCGAAGGCATTTGTGC-TAGTGA-TA-ATTCC
66 CGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATA-TCC
*
40753861 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
40753926 CGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
66 CGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
*
40753981 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
40754011 AGCTATATCC
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
117 2 0.01
118 82 0.59
119 17 0.12
120 36 0.26
121 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
Found at i:40756782 original size:47 final size:48
Alignment explanation
Indices: 40756710--40756978 Score: 267
Period size: 46 Copynumber: 5.8 Consensus size: 48
40756700 GGTAAGGTAT
* * * *
40756710 CGATGCCATGTCCCATACATAGTCTTACATTGGCTCAT-ATCTC-AAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGC
*
40756757 CGATGCCATGTCCCAGACATGGTCTTACA-TAGCT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGC
* * * *
40756804 CAATG-CATGTCCCAGACATGTCTTACACTAGCTTA-CGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGC
*
40756850 CGATG-CATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTC-AATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA-GC
* **
40756896 CGATGCCATGTCCCAGACATGGTCTTACACT-GTCTC-TCATAAT-GTGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCATCAT-CTCGAAGC
*
40756944 CGATG-CATGTCCCATACATGTCTTACACTAGCTCA
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCA
40756979 CAAACAAATG
Statistics
Matches: 192, Mismatches: 17, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
45 11 0.06
46 94 0.49
47 63 0.33
48 23 0.12
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGC
Found at i:40756950 original size:94 final size:92
Alignment explanation
Indices: 40756757--40756977 Score: 263
Period size: 94 Copynumber: 2.4 Consensus size: 92
40756747 TATCTCAAGT
* *
40756757 CGATGCCATGTCCCAGACATGGTCTTACA-TAGCTATCATCTCGTAGCCAATGCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCATAGCCAATGCATGTCCCAGAC
* *
40756821 ATGTCTTACACTAGCTTACGTCTCGAGGC
64 ATGTCTTACACTAGCTTACATATCGAGGC
* *
40756850 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA-ATGCCGATGCCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATA-GCCAATG-CATGTCCCAGAC
*
40756914 ATGGTCTTACACT-GTCTCT-CATAAT-GTGGC
64 AT-GTCTTACACTAG-CT-TACAT-ATCGAGGC
*
40756944 CGATGCATGTCCCATACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
40756978 ACAAACAAAT
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
91 9 0.08
92 31 0.27
93 20 0.18
94 51 0.45
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATAGCCAATGCATGTCCCAGACAT
GTCTTACACTAGCTTACATATCGAGGC
Found at i:40763703 original size:47 final size:47
Alignment explanation
Indices: 40763604--40763704 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 47
40763594 TAATTTGTTG
** * *
40763604 GAAAAAAATGGACATGAAATAGGTGAAAGAATATTTTTACGTTAGGT
1 GAAAAAAATGGACATGAAATAGGTGAAAGAATATTTTTAAATGAGAT
40763651 GAAAAAAATGGACATGAAATAGGTGAAAGAATATTTTTAAAATGA-AT
1 GAAAAAAATGGACATGAAATAGGTGAAAGAATATTTTT-AAATGAGAT
*
40763698 TAAAAAA
1 GAAAAAA
40763705 CAAAATAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 45 0.94
48 3 0.06
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (47 bp):
GAAAAAAATGGACATGAAATAGGTGAAAGAATATTTTTAAATGAGAT
Found at i:40779611 original size:27 final size:27
Alignment explanation
Indices: 40779581--40779718 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
40779571 ACGAAATCAT
40779581 CAGATACAGATATTGTGGCAGAGCCAC
1 CAGATACAGATATTGTGGCAGAGCCAC
40779608 CAGA-ACAGATATATGTGGCAGAGCCAC
1 CAGATACAGATAT-TGTGGCAGAGCCAC
*
40779635 CAGAT-CAGATAGTTGTGGCATAGCCAC
1 CAGATACAGATA-TTGTGGCAGAGCCAC
* *
40779662 CAG-GACAGATATATGTGGCTGAGCCAC
1 CAGATACAGATAT-TGTGGCAGAGCCAC
* *
40779689 CAAAT-CAGATAATTGTGGCATAGCCAC
1 CAGATACAGAT-ATTGTGGCAGAGCCAC
40779716 CAG
1 CAG
40779719 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.09
27 83 0.87
28 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATACAGATATTGTGGCAGAGCCAC
Found at i:40779719 original size:54 final size:54
Alignment explanation
Indices: 40779587--40779721 Score: 218
Period size: 54 Copynumber: 2.5 Consensus size: 54
40779577 TCATCAGATA
* * *
40779587 CAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAAT
* *
40779640 CAGATAGTTGTGGCATAGCCACCAGGACAGATATATGTGGCTGAGCCACCAAAT
1 CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAAT
40779694 CAGATAATTGTGGCATAGCCACCAGGAC
1 CAGATAATTGTGGCATAGCCACCAGGAC
40779722 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 5 0.07
54 70 0.93
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.19
Consensus pattern (54 bp):
CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAAT
Found at i:40793477 original size:12 final size:12
Alignment explanation
Indices: 40793460--40793485 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
40793450 AATATATAGT
40793460 CATACTCGAACC
1 CATACTCGAACC
40793472 CATACTCGAACC
1 CATACTCGAACC
40793484 CA
1 CA
40793486 AGGTAAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.08, T:0.15
Consensus pattern (12 bp):
CATACTCGAACC
Found at i:40793598 original size:18 final size:20
Alignment explanation
Indices: 40793562--40793608 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
40793552 AGTTGTAAGT
40793562 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
40793582 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
40793601 ATGATATA
1 AT-ATATA
40793609 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:40794079 original size:50 final size:50
Alignment explanation
Indices: 40793960--40794327 Score: 315
Period size: 50 Copynumber: 7.3 Consensus size: 50
40793950 ATTGTGAGAA
* * * * ** *
40793960 CACATGTGTAGTACTATGTGTAGGCTACTATGTGCATAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGT
** * * *
40794012 CATGTGTGTTGTACTAAGTGTAGGCTACTACGTGTACCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** * * * *
40794062 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * *
40794113 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
*** * * * *
40794163 CATGCGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * *
40794213 CGCATGTGTAGTACTAAGTGCAGGCTCCTATGTGTA-TAGGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATTGTTAGGT
* * *
40794263 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
*
40794313 CGCATGTGTAGTACT
1 CACATGTGTAGTACT
40794328 GTGACACCCC
Statistics
Matches: 255, Mismatches: 58, Indels: 8
0.79 0.18 0.02
Matches are distributed among these distances:
50 182 0.71
51 40 0.16
52 33 0.13
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:40796731 original size:47 final size:47
Alignment explanation
Indices: 40796668--40797180 Score: 873
Period size: 47 Copynumber: 10.7 Consensus size: 47
40796658 ATGATAGTAT
40796668 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
40796715 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
40796762 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
40796809 TGCCTATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 -G-----GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
40796862 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
40796909 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
40796956 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
40797003 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
40797050 GGACTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATCTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
40797099 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
40797148 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
40797181 CCCGAAGGGC
Statistics
Matches: 448, Mismatches: 9, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
47 309 0.69
48 1 0.00
49 87 0.19
50 4 0.01
52 1 0.00
53 46 0.10
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:40796997 original size:194 final size:188
Alignment explanation
Indices: 40796668--40797180 Score: 882
Period size: 194 Copynumber: 2.7 Consensus size: 188
40796658 ATGATAGTAT
40796668 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
40796733 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
40796798 ATATGTGATAATGCCTATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
131 ATATGTGATAA-G-----GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
40796862 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
40796927 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
40796992 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
131 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * **
40797050 GGACTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATCTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAATGCCTAATGGCCGATG
*
40797115 TGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGATAAG
64 TGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA-AAG
40797180 T
126 T
40797181 CCCGAAGGGC
Statistics
Matches: 309, Mismatches: 5, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
188 78 0.25
190 44 0.14
192 41 0.13
193 5 0.02
194 141 0.46
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.30
Consensus pattern (188 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:40797350 original size:37 final size:37
Alignment explanation
Indices: 40797298--40797374 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
40797288 CCGAGCTCTA
* * *
40797298 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40797335 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40797372 AAG
1 AAG
40797375 TCTTCGTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40824366 original size:144 final size:141
Alignment explanation
Indices: 40824069--40824393 Score: 456
Period size: 144 Copynumber: 2.3 Consensus size: 141
40824059 CAATTAAAGT
* * * * ** * *
40824069 ACCAATACCATGTCCCCGACATAGTCTTACATGAATC-CACATATCATCGCTGATGCCATGTCCC
1 ACCAATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCGATGCCATGTCCC
* *
40824133 AGACATGGTCTTACACTGGCACACATATCATCGATGCCATGTCCCATACATGGTCTTACACAGGC
65 AGACATGGTCTTACACTGGCACACATATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGC
40824198 ACATATATCATC
130 ACATATATCATC
*
40824210 GCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCCATGTCCCA
1 ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCCATGTCCCA
*
40824275 GACATGGTCTTACACAT-GCACATTTATTATCACCGATGCCATGTCCCAGACATGGTCTTACACA
66 GACATGGTCTTACAC-TGGCACA--CA-TATCACCGATGCCATGTCCCAGACATGGTCTTACACA
* *
40824339 TGCACATTTATCATC
127 GGCACATATATCATC
*
40824354 ACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
40824394 TTAGCACGGT
Statistics
Matches: 163, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
140 2 0.01
141 73 0.45
142 1 0.01
143 1 0.01
144 86 0.53
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (141 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCACACATATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
CATATATCATC
Found at i:40824385 original size:48 final size:48
Alignment explanation
Indices: 40824076--40824396 Score: 411
Period size: 48 Copynumber: 6.8 Consensus size: 48
40824066 AGTACCAATA
* * * * * *
40824076 CCATGTCCCCGACATAGTCTTACATGAATCCACA--TATCATCGCTGATG
1 CCATGTCCCAGACATGGTCTTACA--CATGCACATTTATCATCACCGATG
* *
40824124 CCATGTCCCAGACATGGTCTTACAC-TGGCACA--CAT-ATCATCGATG
1 CCATGTCCCAGACATGGTCTTACACAT-GCACATTTATCATCACCGATG
* * * * *
40824169 CCATGTCCCATACATGGTCTTACACAGGCACATATATCATCGCCAATG
1 CCATGTCCCAGACATGGTCTTACACATGCACATTTATCATCACCGATG
* * *
40824217 CCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACATGCACATTTATCATCACCGATG
*
40824265 CCATGTCCCAGACATGGTCTTACACATGCACATTTATTATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACATGCACATTTATCATCACCGATG
40824313 CCATGTCCCAGACATGGTCTTACACATGCACATTTATCATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACATGCACATTTATCATCACCGATG
*
40824361 CCATGTCCCAGACATGGTCTTACACAGGCACATTTA
1 CCATGTCCCAGACATGGTCTTACACATGCACATTTA
40824397 GCACGGTGTC
Statistics
Matches: 246, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
45 37 0.15
46 6 0.02
47 2 0.01
48 201 0.82
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACATGCACATTTATCATCACCGATG
Found at i:40826054 original size:24 final size:24
Alignment explanation
Indices: 40826027--40826072 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
40826017 AGTGTTATGT
* * *
40826027 GGAGGAAATCAAAGAGAGGATTGG
1 GGAGAAAACCAAAGAGAAGATTGG
*
40826051 GGAGAAAACCAAGGAGAAGATT
1 GGAGAAAACCAAAGAGAAGATT
40826073 ATGGAGAGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.07, G:0.37, T:0.11
Consensus pattern (24 bp):
GGAGAAAACCAAAGAGAAGATTGG
Found at i:40829816 original size:47 final size:47
Alignment explanation
Indices: 40829750--40830037 Score: 459
Period size: 47 Copynumber: 6.1 Consensus size: 47
40829740 GAAATGATAG
40829750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40829797 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40829844 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
40829893 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40829940 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
40829987 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40830034 TAAG
1 TAAG
40830038 TCCCGAAGGG
Statistics
Matches: 224, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 179 0.80
49 45 0.20
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:40829923 original size:96 final size:94
Alignment explanation
Indices: 40829750--40830037 Score: 459
Period size: 96 Copynumber: 3.0 Consensus size: 94
40829740 GAAATGATAG
40829750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
40829815 GTGATGAATGTGAAAGTGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
40829844 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
40829909 ATGTGATGAATGTGAAAGTGTATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
40829940 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
40830005 GTGATGGATGTGAAAGTGCATAAATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
40830034 TAAG
1 TAAG
40830038 TCCCGAAGGG
Statistics
Matches: 180, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
94 88 0.49
96 92 0.51
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:40830009 original size:143 final size:141
Alignment explanation
Indices: 40829750--40830037 Score: 468
Period size: 143 Copynumber: 2.0 Consensus size: 141
40829740 GAAATGATAG
40829750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * *
40829815 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTG
*
40829880 TATATATATGTGA
131 CATA-A-ATGTGA
40829893 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * *
40829958 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTG
40830023 CATAAATGTGA
131 CATAAATGTGA
40830034 TAAG
1 TAAG
40830038 TCCCGAAGGG
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
141 10 0.07
142 1 0.01
143 124 0.92
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTG
CATAAATGTGA
Found at i:40830211 original size:37 final size:37
Alignment explanation
Indices: 40830155--40830233 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
40830145 CCGAGCTCTA
*
40830155 AAGACCCGATGACTACGTGTGG-GAATT-TCGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTAT-GTCCGGGT
*
40830192 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40830229 AAGAC
1 AAGAC
40830234 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40831756 original size:18 final size:20
Alignment explanation
Indices: 40831725--40831762 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
40831715 TGGGCCATGT
40831725 TGGGCCGAAATGGG-TCGTG
1 TGGGCCGAAATGGGTTCGTG
40831744 TGGGCCG-AATGGGTTCGTG
1 TGGGCCGAAATGGGTTCGTG
40831763 GGCTCCACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.13, C:0.16, G:0.47, T:0.24
Consensus pattern (20 bp):
TGGGCCGAAATGGGTTCGTG
Found at i:40832617 original size:18 final size:17
Alignment explanation
Indices: 40832585--40832624 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
40832575 CACAATTGCA
*
40832585 TTTATTTTACATTTGGT
1 TTTATTTTACATTTGGG
*
40832602 TTTATTCTTACTTTTGGG
1 TTTATT-TTACATTTGGG
40832620 TTTAT
1 TTTAT
40832625 GTTTTTGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65
Consensus pattern (17 bp):
TTTATTTTACATTTGGG
Found at i:40834580 original size:40 final size:40
Alignment explanation
Indices: 40834519--40834762 Score: 300
Period size: 40 Copynumber: 6.2 Consensus size: 40
40834509 CGGAATTTAG
* * * * *
40834519 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAA
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
40834559 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
40834599 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
40834639 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
40834679 CCGGATAAAATCACTAG--CAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
40834717 CCGGATAAAATCACTAGCAC-AATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
40834756 CCGGATA
1 CCGGATA
40834763 TCATTCAAAT
Statistics
Matches: 184, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 38 0.21
39 26 0.14
40 116 0.63
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:40842676 original size:40 final size:40
Alignment explanation
Indices: 40842616--40842858 Score: 298
Period size: 40 Copynumber: 6.2 Consensus size: 40
40842606 CGGAATTTAG
* * * *
40842616 CGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
* * * * *
40842656 CGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACC
* * *
40842696 CGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACC
40842736 CGGATAAAATCACTAGCAC-AATGCCTTCGGGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
*
40842775 CGGATAAAATCACTAGCATAAATGCCTTC-GGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
* *
40842814 CGGATAAAATCACTAGCAC-AATGCCTTCGGGACTTAGCC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
40842853 CGGATA
1 CGGATA
40842859 TCATTCAAAT
Statistics
Matches: 182, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 9 0.05
39 81 0.45
40 88 0.48
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
Found at i:40842841 original size:78 final size:80
Alignment explanation
Indices: 40842630--40842858 Score: 313
Period size: 78 Copynumber: 2.9 Consensus size: 80
40842620 TATAACCACA
* * * * *
40842630 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAG
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTAGCAC-AATGCCTTCGGGTCTTAG
*
40842694 CCCGGAT-ATATCAACT
64 CCCGGATAAAATCAACT
* * *
40842710 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATGCCTTCGGGTCTTAACC
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATGCCTTCGGGTCTTAGCC
40842775 CGGATAAAATC-ACT
66 CGGATAAAATCAACT
* *
40842789 AGCATAAATGCCTTC-GGTCTTAACCCGGATAAAATCACTAGCACAATGCCTTCGGGACTTAGCC
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATGCCTTCGGGTCTTAGCC
40842853 CGGATA
66 CGGATA
40842859 TCATTCAAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 52 0.39
79 40 0.30
80 38 0.29
81 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATGCCTTCGGGTCTTAGCC
CGGATAAAATCAACT
Found at i:40846296 original size:40 final size:40
Alignment explanation
Indices: 40846241--40846318 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
40846231 CAAGTAAGTT
* *
40846241 GATTTTTTAAAAGAGTGATTAATTGTGATATGTATATATA
1 GATTTTTCAAAAGAGTGATTAATTATGATATGTATATATA
* *
40846281 GATTTTTCAAAAGAGTGGTTAATTATGATATTTATATA
1 GATTTTTCAAAAGAGTGATTAATTATGATATGTATATA
40846319 AGCACTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (40 bp):
GATTTTTCAAAAGAGTGATTAATTATGATATGTATATATA
Found at i:40846519 original size:30 final size:30
Alignment explanation
Indices: 40846478--40846536 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
40846468 GTTTCATGAG
* *
40846478 TAAAAATAATAGGA-TAGATGCTTATTTAAC
1 TAAAAAAAATAGGACAAGAT-CTTATTTAAC
*
40846508 TAAAAAAAATAGTACAAGATCTTATTTAA
1 TAAAAAAAATAGGACAAGATCTTATTTAA
40846537 ACAAGATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (30 bp):
TAAAAAAAATAGGACAAGATCTTATTTAAC
Found at i:40852924 original size:48 final size:48
Alignment explanation
Indices: 40852853--40852946 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
40852843 GAAAAAAAAA
*
40852853 TTGTCTGCAACTCTGCATTGGTCAACTTGGAATTACAGTTAGGATTAT
1 TTGTCTGCAACTCTGCATTGGTCAACTTGGAATTACAATTAGGATTAT
*
40852901 TTGTCTGCAACTCTGCATTGGTCAACTTGGGATTACAATTAGGATT
1 TTGTCTGCAACTCTGCATTGGTCAACTTGGAATTACAATTAGGATT
40852947 GGTAAATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (48 bp):
TTGTCTGCAACTCTGCATTGGTCAACTTGGAATTACAATTAGGATTAT
Found at i:40855106 original size:48 final size:48
Alignment explanation
Indices: 40855035--40855131 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
40855025 GAGATTGTGA
*
40855035 TTAAATATGGGCTAGTTTCGTATACGAGGAAAACAAGTTGGGCCAGGT
1 TTAAATATGGGCTAGTTTCGTATACGAGGAAAACAAATTGGGCCAGGT
40855083 TTAAATATGGGCTAGTTTCGTATACGAGGAAAACAAATTGGGCCAGGT
1 TTAAATATGGGCTAGTTTCGTATACGAGGAAAACAAATTGGGCCAGGT
40855131 T
1 T
40855132 GGTCAAAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (48 bp):
TTAAATATGGGCTAGTTTCGTATACGAGGAAAACAAATTGGGCCAGGT
Found at i:40857709 original size:42 final size:43
Alignment explanation
Indices: 40857607--40857727 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 43
40857597 AACAAGTACA
* * *
40857607 ATACCGACGTCCCAGAC-GTGGTCTTACATGTAATTCAATATCG
1 ATACCGATGTCCCAGACAG-GGTCTTACACGTAAATCAATATCG
* **
40857650 ATGCCTCTGTCCCAGACAGGGTCTTACACG-AAATCAGATA-CG
1 ATACCGATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATCG
* *
40857692 ATACCGATGTCCCAGACATGGTCTTATACGTAAATC
1 ATACCGATGTCCCAGACAGGGTCTTACACGTAAATC
40857728 TCAATCGACG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 32 0.50
43 31 0.48
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATACCGATGTCCCAGACAGGGTCTTACACGTAAATCAATATCG
Found at i:40857758 original size:85 final size:85
Alignment explanation
Indices: 40857607--40857765 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
40857597 AACAAGTACA
* * * *
40857607 ATACCGACGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATACCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGACGCCTCTGTCCCAGACACGGT
40857672 CTTACACGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* * * * *
40857692 ATACCGATGTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGACGCTTGTGTCCCATACACG
1 ATACCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGACGCCTCTGTCCCAGACACG
40857755 GTCTTACACGA
64 GTCTTACACGA
40857766 TGTCTGTGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 57 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (85 bp):
ATACCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGACGCCTCTGTCCCAGACACGGT
CTTACACGAAATCAGATACG
Found at i:40859385 original size:25 final size:25
Alignment explanation
Indices: 40859351--40859406 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
40859341 TTGATTTTTA
40859351 TAAAGCTTACTATAATCTATGTGTG
1 TAAAGCTTACTATAATCTATGTGTG
40859376 TAAAGCTTACTATAATCTATGTGTG
1 TAAAGCTTACTATAATCTATGTGTG
40859401 TGAAAG
1 T-AAAG
40859407 TCGAATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (25 bp):
TAAAGCTTACTATAATCTATGTGTG
Found at i:40859868 original size:40 final size:40
Alignment explanation
Indices: 40859813--40860044 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
40859803 ATTTGAATAC
*
40859813 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
40859853 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
40859895 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
40859935 ATCCGGGCTAAGACCCAAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
40859975 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
40860015 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
40860045 TTGTGGTTAT
Statistics
Matches: 177, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 137 0.77
42 40 0.23
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:40859950 original size:82 final size:81
Alignment explanation
Indices: 40859805--40860044 Score: 383
Period size: 82 Copynumber: 3.0 Consensus size: 81
40859795 GCATGAGCAT
* *
40859805 TTGAATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
* *
40859870 AAGGCATTTGTGCGAG
66 AAGGCAATTGTGCAAG
40859886 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
1 TTGA-ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
*
40859951 AAAGGCAATTGTGCAAG
65 GAAGGCAATTGTGCAAG
* * * *
40859968 TTG-ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
40860032 AAGGCAATTGTGC
66 AAGGCAATTGTGC
40860045 TTGTGGTTAT
Statistics
Matches: 148, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
80 69 0.47
81 4 0.03
82 75 0.51
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (81 bp):
TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
AAGGCAATTGTGCAAG
Found at i:40863942 original size:44 final size:47
Alignment explanation
Indices: 40863875--40863998 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 47
40863865 TATACGTGCT
* * * *
40863875 GATGTATGTCCCCGACATATCTTACACTAGCACGA-AAC-TT-AG-CC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-ACAACATTAAGTCC
* *
40863919 GATGCATGTCCCAGACACGTCTTACACTGGCTA-ACATCATTAAGTCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACACAACATTAAGTCC
40863966 GATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
40863999 TCACCTCTAC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.42
45 3 0.04
46 3 0.04
47 32 0.48
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACACAACATTAAGTCC
Found at i:40863974 original size:47 final size:46
Alignment explanation
Indices: 40863916--40864087 Score: 172
Period size: 47 Copynumber: 3.7 Consensus size: 46
40863906 ACGAAACTTA
*
40863916 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATTAA
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATTAC
*
40863962 GTCCGATGCATGTCCCAGACATGTCTTACACTGGC--AC-TCACCTCTAC
1 G-CCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA--T-TAC
* ** * * * *
40864009 GCCGATGCCATGTCCAAGACGTGGTCTTACACGGGCTATCATGA-TGC
1 GCCGATG-CATGTCCCAGAC-ACGTCTTACACTGGCTAACATCATTAC
40864056 GCCTGATGCATGTCCCAGACACGTCTTACACT
1 GCC-GATGCATGTCCCAGACACGTCTTACACT
40864088 AGCCCTCGTC
Statistics
Matches: 103, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 17 0.17
47 62 0.60
48 16 0.16
50 1 0.01
51 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATTAC
Found at i:40864068 original size:94 final size:94
Alignment explanation
Indices: 40863822--40864131 Score: 324
Period size: 94 Copynumber: 3.3 Consensus size: 94
40863812 CTCCATCAAG
* * * * * *
40863822 GCCGATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGTATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATG-ATACGTCCTGATGCATGTCCC
* * **
40863887 CGACATATCTTACACTAGCACGAAACT-TA
65 AGACATGTCTTACACTAGCACTCAACTCTA
* * * *
40863916 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTAACATCATTAAGTCC-GATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGA-TACGTCCTGATGCATGTCCC
* *
40863978 AGACATGTCTTACACTGGCACTCACCTCTA
65 AGACATGTCTTACACTAGCACTCAACTCTA
* * * *
40864008 CGCCGATGCCATGTCCAAGACGTGGTCTTACACGGGCTATCATGATGCG-CCTGATGCATGTCCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATACGTCCTGATGCATGTCCC
* * ** *
40864072 AGACACGTCTTACACTAGCCCTCGTCTCAA
65 AGACATGTCTTACACTAGCACTCAACTCTA
40864102 TGCCGATGCCATGTCCCAGACATGGTCTTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTA
40864132 TTCTGGCTCT
Statistics
Matches: 177, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
91 33 0.19
92 22 0.12
93 21 0.12
94 83 0.47
95 18 0.10
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATACGTCCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCAACTCTA
Found at i:40886396 original size:22 final size:23
Alignment explanation
Indices: 40886371--40886416 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
40886361 CAACCAAATC
40886371 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
40886393 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
40886416 A
1 A
40886417 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:40886422 original size:23 final size:23
Alignment explanation
Indices: 40886378--40886422 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
40886368 ATCAATTCAA
*
40886378 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
40886401 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
40886423 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:40889180 original size:16 final size:14
Alignment explanation
Indices: 40889148--40889177 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
40889138 GTAAATTAAG
40889148 TAAAAATTATAATA
1 TAAAAATTATAATA
40889162 TAAAAATTATAATA
1 TAAAAATTATAATA
40889176 TA
1 TA
40889178 TAACATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAAATTATAATA
Found at i:40890467 original size:27 final size:27
Alignment explanation
Indices: 40890416--40890467 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
40890406 ATATTATATT
*
40890416 TATTAAAATAAAAAAAGATGTATATAA
1 TATTAAAATAAAAAAAGATGGATATAA
40890443 TATTAAAA-AAACAAAA-ATAGGATAT
1 TATTAAAATAAA-AAAAGAT-GGATAT
40890468 GTGGTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (27 bp):
TATTAAAATAAAAAAAGATGGATATAA
Found at i:40896415 original size:33 final size:32
Alignment explanation
Indices: 40896354--40896416 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
40896344 CTGATACTGA
**
40896354 ACTGTAATGGGCTAAGCCCACATTAATACTTT
1 ACTGTAATGGGCTAAGCCCACACCAATACTTT
*
40896386 ACTGTAATGGGCTATGGCCCACACCAATACT
1 ACTGTAATGGGCTA-AGCCCACACCAATACT
40896417 AGACTGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (32 bp):
ACTGTAATGGGCTAAGCCCACACCAATACTTT
Found at i:40902907 original size:14 final size:14
Alignment explanation
Indices: 40902828--40902907 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
40902818 GTATCTTGGG
*
40902828 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
40902843 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
40902858 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
* *
40902873 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
40902888 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
40902902 TTTCTT
1 TTTCTT
40902908 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:40905342 original size:46 final size:45
Alignment explanation
Indices: 40905289--40905464 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
40905279 TATTTGGGCA
40905289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
* * * *
40905334 GTCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GC
* * *
40905381 ATCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
* * * *
40905427 ACCCAAGCTCGTTGAGTTGTGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40905465 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 4 0.04
45 5 0.05
46 59 0.57
47 30 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
Found at i:40905444 original size:93 final size:93
Alignment explanation
Indices: 40905285--40905457 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
40905275 GGGATATTTG
* * *
40905285 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCCAACTCGTTGAG
*
40905350 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
40905378 GGCATCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAAC-ACCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCCAA-CTCGTTGA
*
40905442 GTTGTGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
40905458 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCCAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:40908467 original size:48 final size:48
Alignment explanation
Indices: 40908384--40908519 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
40908374 GGCTATTGGC
* * * *
40908384 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATCTACA
1 ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATCGATATACA
* * * ***
40908432 ATCCCATGTAAGACCATGTCTAAGATAGGGTATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATCGATATACA
* *
40908480 ATCCCATGTAAAACCATATCTAGGATATGGAATTGGCATC
1 ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATC
40908520 CTACCATGTG
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATCGATATACA
Found at i:40914188 original size:27 final size:27
Alignment explanation
Indices: 40914156--40914297 Score: 167
Period size: 27 Copynumber: 5.3 Consensus size: 27
40914146 GGGGCAAAAT
* * *
40914156 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
40914183 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
40914210 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
40914237 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
40914264 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
40914291 GGTAATT
1 GGTAATT
40914298 TTACAAGCCA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:40914214 original size:54 final size:54
Alignment explanation
Indices: 40914155--40914378 Score: 200
Period size: 54 Copynumber: 4.1 Consensus size: 54
40914145 AGGGGCAAAA
* * * * * * *
40914155 TGGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTT
* * * *
40914209 CGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTT
* * * **
40914263 TAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTT
* ** ** * * *
40914317 TGGTAATTTTA-CAAACCAGGGGTATTTTACTAATTTTA-CAAACCAAGGGTATTT
1 TGGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTCTACCATA-CAGGGGTATTT
40914371 TGGTAATT
1 TGGTAATT
40914379 TTATCATATA
Statistics
Matches: 139, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
53 3 0.02
54 136 0.98
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAGGGGTATTT
Found at i:40914281 original size:81 final size:80
Alignment explanation
Indices: 40914155--40914328 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 80
40914145 AGGGGCAAAA
* *
40914155 TGGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCTTACAGGGGTATTTCGGTAATTCTA
1 TGGT-ATTTTACCCCACAAGGGTATCTAGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
***
40914220 CCCTACAGGGGTATTT
65 CAAGACAGGGGTATTT
* * * *
40914236 TGGTATTTCTACCCTACAAGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTTTGGTAATTTT
1 TGGTATTT-TACCCCACAAGGGTA-TCTAGATAATTCTACCCTACAGGGGTATTTCGGTAATTCT
*
40914300 ACAAGCCAGGGGTATTT
64 ACAAGACAGGGGTATTT
40914317 TGGTAATTTTAC
1 TGGT-ATTTTAC
40914329 AAACCAGGGG
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
80 4 0.05
81 69 0.86
82 7 0.09
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (80 bp):
TGGTATTTTACCCCACAAGGGTATCTAGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
AAGACAGGGGTATTT
Found at i:40914309 original size:27 final size:27
Alignment explanation
Indices: 40914279--40914381 Score: 170
Period size: 27 Copynumber: 3.8 Consensus size: 27
40914269 TTCTACCCTA
*
40914279 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
40914306 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
40914333 CAGGGGTATTTTACTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
40914360 CAAGGGTATTTTGGTAATTTTA
1 CAGGGGTATTTTGGTAATTTTA
40914382 TCATATAACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:40914340 original size:81 final size:81
Alignment explanation
Indices: 40914185--40914381 Score: 211
Period size: 81 Copynumber: 2.4 Consensus size: 81
40914175 GGTATCTCGA
* * * *** *
40914185 TAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCC
1 TAATTCTACCATACAGGGGTATTTTGGTAATTTTACAAGACAGGGGTATTTTGGTATTTCTACCA
* *
40914250 TACAAGGGTATTTTAG
66 AACAAGGGTATTTTAC
* *
40914266 TAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTT-TA-C
1 TAATTCTACCATACAGGGGTATTTTGGTAATTTTACAAGACAGGGGTATTTTGGT-ATTTCTACC
*
40914329 AAACCAGGGGTATTTTAC
65 AAA-CAAGGGTATTTTAC
* * *
40914347 TAATTTTA-CAAACCAAGGGTATTTTGGTAATTTTA
1 TAATTCTACCATA-CAGGGGTATTTTGGTAATTTTA
40914382 TCATATAACT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.04
81 90 0.92
82 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (81 bp):
TAATTCTACCATACAGGGGTATTTTGGTAATTTTACAAGACAGGGGTATTTTGGTATTTCTACCA
AACAAGGGTATTTTAC
Found at i:40914433 original size:24 final size:25
Alignment explanation
Indices: 40914413--40914503 Score: 130
Period size: 25 Copynumber: 3.6 Consensus size: 25
40914403 CTCTTTTAAT
*
40914413 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
40914438 AACTGGGGGAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
40914463 AACTGGGGCAAAGCCCTTTTCTG-TA
1 AACTGGGGCAAAGCCCTTTT-TGATA
40914488 AACTGGGGCAAAGCCC
1 AACTGGGGCAAAGCCC
40914504 GTTTAGCACT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 58 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:40914740 original size:27 final size:27
Alignment explanation
Indices: 40914710--40914878 Score: 176
Period size: 27 Copynumber: 6.3 Consensus size: 27
40914700 GGGGAAAAAT
* * * *
40914710 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
40914737 GGTAATTCTACACTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
40914764 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
40914791 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
40914818 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* **** *
40914845 GGTAATTTTACAAGCCAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
40914872 GGTAATT
1 GGTAATT
40914879 TTACAAACTA
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:40914865 original size:81 final size:80
Alignment explanation
Indices: 40914714--40914870 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 80
40914704 AAAAATGGTA
* ***
40914714 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACACTACAGGGGTATTTCAGTAATTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGATAATTCTACACTACAGGGGTATTTCAGTAATTCTACAAGA
*
40914779 TAGGGGTATTTCAGT
66 CAGGGGTATTTCAGT
* * * ** *
40914794 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAG
1 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACACTACAGGGGTATTTCAGTAATTCTACAAG
*
40914859 CCAGGGGTATTT
65 ACAGGGGTATTT
40914871 TGGTAATTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 4 0.06
81 60 0.94
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGATAATTCTACACTACAGGGGTATTTCAGTAATTCTACAAGA
CAGGGGTATTTCAGT
Found at i:40914878 original size:54 final size:54
Alignment explanation
Indices: 40914709--40914932 Score: 193
Period size: 54 Copynumber: 4.1 Consensus size: 54
40914699 AGGGGAAAAA
* * * * * * *
40914709 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACACTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACAATACAGGGGTATTT
** * ** *
40914763 CAGTAATTCTACCCTATAGGGGTATTTCAGT-ATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCAGTAATTT-TACAATACAGGGGTATTT
* * ** **
40914817 CGATAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACAATACAGGGGTATTT
* ** *
40914871 TGGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAA-ACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTTCAGTAATTTTACAATAC-AGGGGTATTT
40914925 TGGTAATT
1 TGGTAATT
40914933 TTGCTAATCG
Statistics
Matches: 138, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 7 0.05
54 127 0.92
55 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACAATACAGGGGTATTT
Found at i:40914948 original size:27 final size:27
Alignment explanation
Indices: 40914834--40914934 Score: 175
Period size: 27 Copynumber: 3.7 Consensus size: 27
40914824 TCTACCCTAC
* *
40914834 AGGGGTATTTTGGTAATTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACT
40914861 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
40914888 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
40914915 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
40914935 GCTAATCGAG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:40914958 original size:54 final size:54
Alignment explanation
Indices: 40914845--40914959 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
40914835 GGGGTATTTT
* * ****
40914845 GGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTAAAAC
* * * *
40914899 AGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGCTAATCGA-GGGTAAAAC
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-AAACGAGGGGTAAAAC
40914953 GGTAATT
1 GGTAATT
40914960 CTGTAAATCG
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 45 0.92
55 4 0.08
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (54 bp):
GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTAAAAC
Found at i:40915094 original size:27 final size:27
Alignment explanation
Indices: 40914938--40915083 Score: 265
Period size: 27 Copynumber: 5.4 Consensus size: 27
40914928 TAATTTTGCT
40914938 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
40914965 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
40914992 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
40915019 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
40915046 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
40915073 AATCGAGGGTA
1 AATCGAGGGTA
40915084 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:40915102 original size:27 final size:27
Alignment explanation
Indices: 40914938--40915102 Score: 168
Period size: 27 Copynumber: 6.1 Consensus size: 27
40914928 TAATTTTGCT
* **
40914938 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTACA
* **
40914965 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTACA
*
40914992 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTACA
* **
40915019 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTACA
* * **
40915046 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTACA
*** *
40915073 AATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTCTACA
40915100 AAT
1 AAT
40915103 TGAAGGCATT
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTACA
Found at i:40915128 original size:81 final size:81
Alignment explanation
Indices: 40914938--40915110 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
40914928 TAATTTTGCT
* * * *
40914938 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AATCGAAGGCAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
*
40915003 AAATGGTAATTCTATA
66 AAATGGTAATTCTACA
* * *
40915019 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 AATCGAAGGCAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
*** *
40915084 CTTTGGTAATTTTACA
66 AAATGGTAATTCTACA
*
40915100 AATTGAAGGCA
1 AATCGAAGGCA
40915111 TTTCAGTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (81 bp):
AATCGAAGGCAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
AAATGGTAATTCTACA
Found at i:40917561 original size:25 final size:24
Alignment explanation
Indices: 40917533--40917623 Score: 137
Period size: 25 Copynumber: 3.7 Consensus size: 24
40917523 CTCTTTTAAT
*
40917533 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCG-TA
40917558 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTC-GTA
40917583 AACTGGGGCAAAGCCCTTTTCCGTA
1 AACTGGGGCAAAGCCCTTTT-CGTA
*
40917608 AACTGGGTCAAAGCCC
1 AACTGGGGCAAAGCCC
40917624 GTTTAGCACT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
25 60 0.97
26 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTCGTA
Found at i:40917563 original size:50 final size:50
Alignment explanation
Indices: 40917520--40917623 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
40917510 CTGGAGGCCT
40917520 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
** * *
40917569 AGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCCG-TAAACTGGGTCAA
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTT-TGATAAACTGGGGCAA
40917619 AGCCC
1 AGCCC
40917624 GTTTAGCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 37 0.77
51 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
Found at i:40917860 original size:27 final size:27
Alignment explanation
Indices: 40917830--40917971 Score: 149
Period size: 27 Copynumber: 5.3 Consensus size: 27
40917820 GGGGAAAAAT
* * * *
40917830 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
40917857 GGTAATTCTACACTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
40917884 AGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
40917911 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
40917938 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
40917965 GATAATT
1 GGTAATT
40917972 TTACAAGCCA
Statistics
Matches: 91, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:40917955 original size:54 final size:54
Alignment explanation
Indices: 40917848--40917976 Score: 177
Period size: 54 Copynumber: 2.4 Consensus size: 54
40917838 TACCCCACAA
* * * *
40917848 GGGTATCTCGGTAATTCTACACTACAGGGGTATTTCAGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACACTACAAGAGTATTTCAGTAATTCTACCCTATAG
* * *
40917902 GGGTATTTTGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACACTACAAGAGTATTTCAGTAATTCTACCCTATAG
* *
40917956 GGGTATTTCGATAATTTTACA
1 GGGTATTTCGGTAATTCTACA
40917977 AGCCAGGGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACACTACAAGAGTATTTCAGTAATTCTACCCTATAG
Found at i:40917985 original size:81 final size:81
Alignment explanation
Indices: 40917829--40918002 Score: 199
Period size: 81 Copynumber: 2.1 Consensus size: 81
40917819 AGGGGAAAAA
* *
40917829 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACACTACAGGGGTATTTCAGTAATTCTA
1 TGGTAATTTTACCCCACAAGAGTATCTCAGTAATTCTACACTACAGGGGTATTTCAGTAATTCTA
*** *
40917894 CCTTATAGGGGTATTT
66 CAAGACAGGGGTATTT
* * * * *
40917910 TGGT-ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTATAGGGGTATTTC-GATAATTT
1 TGGTAATTT-TACCCCACAAGAGTATCTCAGTAATTCTACACTACAGGGGTATTTCAG-TAATTC
*
40917973 TACAAGCCAGGGGTATTT
64 TACAAGACAGGGGTATTT
*
40917991 TGGTGATTTTAC
1 TGGTAATTTTAC
40918003 AAACCAGGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
80 5 0.06
81 69 0.88
82 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (81 bp):
TGGTAATTTTACCCCACAAGAGTATCTCAGTAATTCTACACTACAGGGGTATTTCAGTAATTCTA
CAAGACAGGGGTATTT
Found at i:40918065 original size:27 final size:27
Alignment explanation
Indices: 40917954--40918054 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
40917944 TCTACCCTAT
* * *
40917954 AGGGGTATTTCGATAATTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
40917981 AGGGGTATTTTGGTGATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
40918008 AGGGTTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
40918035 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
40918055 CTAATCGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:40918209 original size:80 final size:81
Alignment explanation
Indices: 40918019--40918226 Score: 258
Period size: 80 Copynumber: 2.6 Consensus size: 81
40918009 GGGTTATTTT
* * * * * *
40918019 AGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTCT-AATCGAGGGTAAAATGGTAATTCTGT
1 AGTAATTCTATAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
40918083 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * ** *
40918099 AGTAATTCTATAAATCGATGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGT
1 AGTAATTCTATAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
40918164 -AATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * *
40918179 GGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 AGTAATTCTATAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGG
40918227 CATTTCAGTA
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 80 0.75
81 26 0.25
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (81 bp):
AGTAATTCTATAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
AAATCGAGGGTAAAAC
Found at i:40918212 original size:27 final size:27
Alignment explanation
Indices: 40918057--40918201 Score: 220
Period size: 27 Copynumber: 5.4 Consensus size: 27
40918047 GTAATTTTCT
40918057 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
** *
40918084 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
40918111 AATCGATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
40918138 AATCGAGGGTAAAATGGTAATTCTGT-
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
40918164 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
40918191 AATCAAGGGTA
1 AATCGAGGGTA
40918202 CTTTGGTAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.23
27 82 0.77
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:40923461 original size:44 final size:45
Alignment explanation
Indices: 40923404--40923515 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 45
40923394 CCGTGTCGAT
*
40923404 GCATGTCCCAGACATTTCTTACACTAGC-ACATCTCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGCAACATCTCG-AGGCCGAC
* * **
40923448 GCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGGT
1 GCATGTCCCAGACATGTCTTACACTAGC-AACATCTCGAGGCCGAC
40923494 GCATGTCCCAGACATGTCTTAC
1 GCATGTCCCAGACATGTCTTAC
40923516 TTTTCAAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 25 0.42
45 1 0.02
46 33 0.56
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCAACATCTCGAGGCCGAC
Found at i:40926396 original size:40 final size:40
Alignment explanation
Indices: 40926320--40926543 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
40926310 CAAACTCAAG
* * ** *
40926320 TGCCTTCGGGATTTAG-CCGGATAT-AGCAACCCGCACAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
** *
40926359 TGCCTTCGGGTGTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * *
40926399 AGCCTTCGGGACTTAGCCTGGATATAATCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
40926439 TGCCTTCGGGACTTAGCCCGGATATAATCATTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
40926479 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
40926519 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
40926544 CATTCGAATA
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 14 0.09
40 146 0.90
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:40934882 original size:40 final size:40
Alignment explanation
Indices: 40934798--40935021 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
40934788 CAAACTCAAG
* * * *
40934798 TGCCTTCGGGATTTAG-CCGGATATAA-CAACTTGCATAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* *
40934837 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * *
40934877 AGCCTTCGGGACTTAGCCCAGATATAATCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
40934917 TGCCTTTGGGACTTAGCCCGGATATAATCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * * *
40934957 TGCCTTCGGGACTTAGCCCAGATATAGTCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
40934997 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
40935022 CATTCGAATA
Statistics
Matches: 160, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 14 0.09
40 143 0.89
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:40934932 original size:80 final size:80
Alignment explanation
Indices: 40934799--40935021 Score: 315
Period size: 80 Copynumber: 2.8 Consensus size: 80
40934789 AAACTCAAGT
* * * * *
40934799 GCCTTCGGGATTTAG-CCGGATATAA-CAACTTGCATAGATGCCTTCGGGTCTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCAGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
*
40934862 AGTCAATAGCACAAAA
65 AATCAATAGCACAAAA
* *
40934878 GCCTTCGGGACTTAGCCCAGATATAATCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATA
1 GCCTTCGGGACTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
*
40934943 ATCAATAGCACAAAT
66 ATCAATAGCACAAAA
* * *
40934958 GCCTTCGGGACTTAGCCCAGATATAGTCACTAGCATAAATGCCCTCGGGACTTAACCCGGATAT
1 GCCTTCGGGACTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
40935022 CATTCGAATA
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 14 0.11
80 113 0.88
81 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
ATCAATAGCACAAAA
Found at i:40938551 original size:28 final size:29
Alignment explanation
Indices: 40938513--40938580 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
40938503 CAAGTCTACA
*
40938513 TACATGCATATGGCCCACTAGGCCC-AAT
1 TACATTCATATGGCCCACTAGGCCCAAAT
*
40938541 CT-CATTCATATGGCCCATTAGGCCCAAAT
1 -TACATTCATATGGCCCACTAGGCCCAAAT
40938570 TACATTCATAT
1 TACATTCATAT
40938581 TCATGCTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
TACATTCATATGGCCCACTAGGCCCAAAT
Found at i:40938816 original size:23 final size:23
Alignment explanation
Indices: 40938790--40938835 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
40938780 CGTAGCCAAA
* **
40938790 CTTTTGACTTTTCTGCATTTCGG
1 CTTTCGACTTTTCAACATTTCGG
*
40938813 CTTTCGGCTTTTCAACATTTCGG
1 CTTTCGACTTTTCAACATTTCGG
40938836 GATTTGTCGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (23 bp):
CTTTCGACTTTTCAACATTTCGG
Found at i:40939915 original size:27 final size:27
Alignment explanation
Indices: 40939877--40939930 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
40939867 GGCTTTCTTG
*
40939877 TGTCCAATTCTTCCTTCGTTTATTTAA
1 TGTCCAATTCTTCCTTCATTTATTTAA
40939904 TGTCCAATTCTTCCTTCATTTATTTAA
1 TGTCCAATTCTTCCTTCATTTATTTAA
40939931 AAGCCAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (27 bp):
TGTCCAATTCTTCCTTCATTTATTTAA
Found at i:40947851 original size:16 final size:16
Alignment explanation
Indices: 40947827--40947857 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40947817 TGGTTATTTA
*
40947827 ATATTTGATGCAAATT
1 ATATATGATGCAAATT
40947843 ATATATGATGCAAAT
1 ATATATGATGCAAAT
40947858 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:40947867 original size:19 final size:19
Alignment explanation
Indices: 40947843--40947886 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
40947833 GATGCAAATT
40947843 ATATATGATGCAAATG-AAA
1 ATATATG-TGCAAATGAAAA
* *
40947862 ATATATGTGTATATGAAAA
1 ATATATGTGCAAATGAAAA
40947881 ATATAT
1 ATATAT
40947887 TCAGCCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
ATATATGTGCAAATGAAAA
Found at i:40962329 original size:21 final size:20
Alignment explanation
Indices: 40962300--40962338 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
40962290 TCTTGAAATA
40962300 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
40962320 GGGCAACACGCCCGTGTGG
1 GGGC-ACACGCCCGTGTGG
40962339 TTATTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.31, G:0.41, T:0.13
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:40964382 original size:30 final size:30
Alignment explanation
Indices: 40964348--40964406 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
40964338 TCCCGAGCCC
*
40964348 AGGGGCAAAAGTGTAATTATGCAAAAGTTT
1 AGGGGCAAAAATGTAATTATGCAAAAGTTT
*
40964378 AGGGGCAAAAATGTAATTTTGCAAAAGTT
1 AGGGGCAAAAATGTAATTATGCAAAAGTT
40964407 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (30 bp):
AGGGGCAAAAATGTAATTATGCAAAAGTTT
Found at i:40967083 original size:29 final size:29
Alignment explanation
Indices: 40967038--40967150 Score: 97
Period size: 29 Copynumber: 3.9 Consensus size: 29
40967028 GTATGAATAT
* *
40967038 AATATGATTTGGACCTAATGGGCCATATA-
1 AATATGAATTGGGCCTAATGGGCCATA-AG
* *
40967067 AATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAATGGGCCATAAG
* **
40967096 AATATGAACTGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTA-ATGGGCCATAAG
* * *
40967125 AATAAG-ATTGGGCCTAGTAGGCCATA
1 AATATGAATTGGGCCTAATGGGCCATA
40967151 TGCATGTATG
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
28 16 0.24
29 51 0.76
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATAAG
Found at i:40967101 original size:58 final size:57
Alignment explanation
Indices: 40967038--40967150 Score: 129
Period size: 58 Copynumber: 2.0 Consensus size: 57
40967028 GTATGAATAT
** ** *
40967038 AATATGATTTGGACCTA-ATGGGCCATATAAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGACC-AGATGGGCCATATAAATAAG-ATTGGGCCTAGTAGGCCATAAG
* * *
40967096 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTAGGCCATA
1 AATATGAACTGGACCAGATGGGCCATATAAATAAGATTGGGCCTAGTAGGCCATA
40967151 TGCATGTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGACCAGATGGGCCATATAAATAAGATTGGGCCTAGTAGGCCATAAG
Found at i:40967897 original size:16 final size:17
Alignment explanation
Indices: 40967865--40967898 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40967855 AACTAACTAA
*
40967865 TCATCTAAAGTAAGAAT
1 TCATATAAAGTAAGAAT
40967882 TCATATAAAG-AAGAAT
1 TCATATAAAGTAAGAAT
40967898 T
1 T
40967899 GGGGGATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (17 bp):
TCATATAAAGTAAGAAT
Found at i:40980213 original size:40 final size:40
Alignment explanation
Indices: 40980158--40980240 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
40980148 GGGAGCTTGT
*
40980158 CTAGCTTGTGGATCTATGGAGCATAGGAT-CAGGAATTACC
1 CTAGCTTGTGGATCTATGAAGCATAGGATCCA-GAATTACC
*
40980198 CTAGCTTGTGGATCTATGAAGCATAGGATCCAGAATTGCC
1 CTAGCTTGTGGATCTATGAAGCATAGGATCCAGAATTACC
40980238 CTA
1 CTA
40980241 AACTGTCAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (40 bp):
CTAGCTTGTGGATCTATGAAGCATAGGATCCAGAATTACC
Found at i:40983025 original size:40 final size:40
Alignment explanation
Indices: 40982980--40983204 Score: 204
Period size: 40 Copynumber: 5.6 Consensus size: 40
40982970 CTTGCACAAG
* * * *
40982980 GCCTTCGAGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGAGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
40983020 GCCTTC-AGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGA-GTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * ** *
40983060 GCCTTCGGGTTTTAGCCTAGATATAATCGCTAGCACAAAT
1 GCCTTCGAGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
40983100 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGAGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
40983140 GCCTTTG-GATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGAG-TCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* *
40983181 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGAGTCTTAGCCCGGATAT
40983205 CATTCGAATA
Statistics
Matches: 150, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.02
40 118 0.79
41 28 0.19
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGAGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:40983093 original size:80 final size:81
Alignment explanation
Indices: 40982944--40983204 Score: 230
Period size: 80 Copynumber: 3.3 Consensus size: 81
40982934 CTCAAGTAAT
* * * * * * * * **
40982944 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTC-GAGTCTTAGCCCGGATGTGG
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGA-TCTTAGTCCAGATATAA
*
40983006 TCA-CTAGCATAAATGC
65 TCACCTAGCACAAATGC
* * * *
40983022 CTTCAGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAG-CCTAGATATA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGATCTTAGTCC-AGATATA
*
40983085 ATC-GCTAGCACAAATGC
64 ATCACCTAGCACAAATGC
* * * * * * *
40983102 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTTGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCAGATATAAT
*
40983167 CACCTAGCACAAAAGC
66 CACCTAGCACAAATGC
40983183 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
40983205 CATTCGAATA
Statistics
Matches: 147, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
78 11 0.07
79 18 0.12
80 82 0.56
81 36 0.24
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCAGATATAAT
CACCTAGCACAAATGC
Done.