Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 84 of 259
Found at i:27235953 original size:8 final size:8
Alignment explanation
Indices: 27235940--27235970 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
27235930 CAATACATTT
27235940 TCTTTCCA
1 TCTTTCCA
27235948 TCTTTCCA
1 TCTTTCCA
*
27235956 ACTTTCCA
1 TCTTTCCA
27235964 TCTTTCC
1 TCTTTCC
27235971 TACCAAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.39, G:0.00, T:0.48
Consensus pattern (8 bp):
TCTTTCCA
Found at i:27238245 original size:48 final size:48
Alignment explanation
Indices: 27238185--27238332 Score: 190
Period size: 48 Copynumber: 3.1 Consensus size: 48
27238175 TTGGGCCACT
* *
27238185 ATATCAGTACTTTGGGTGCGAGCTTTATTGATTTGTCTTCGGACCATG
1 ATATCAGTACTTTGGGTGCGAGCTTTATTAATTTGGCTTCGGACCATG
* *
27238233 ATATCAGCACTTTGGGTGCGAGCTTTATTAATTTGGCTTCGGGCCATG
1 ATATCAGTACTTTGGGTGCGAGCTTTATTAATTTGGCTTCGGACCATG
* * * ** *
27238281 ATATTAGTACTTCGGGTGCGAGATACATTAAGTTGGCTTCAGG-CCATG
1 ATATCAGTACTTTGGGTGCGAGCTTTATTAATTTGGCTTC-GGACCATG
27238329 ATAT
1 ATAT
27238333 GAGCATTTAG
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 86 0.98
49 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.36
Consensus pattern (48 bp):
ATATCAGTACTTTGGGTGCGAGCTTTATTAATTTGGCTTCGGACCATG
Found at i:27244333 original size:21 final size:21
Alignment explanation
Indices: 27244295--27244334 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27244285 TGGAAAAACC
* * *
27244295 ACCACATATTTGCCGATAACT
1 ACCACATAATCGCAGATAACT
27244316 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
27244335 ATTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.23
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACT
Found at i:27246865 original size:22 final size:22
Alignment explanation
Indices: 27246839--27246883 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
27246829 AGATCAACAC
27246839 AAATAT-AATCTCATACATATCA
1 AAATATCAATCTCAT-CATATCA
*
27246861 AAATATCAGTCTCATCATATCA
1 AAATATCAATCTCATCATATCA
27246883 A
1 A
27246884 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATATCAATCTCATCATATCA
Found at i:27250016 original size:43 final size:43
Alignment explanation
Indices: 27249955--27250039 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
27249945 TACATGAATC
*
27249955 GCATCCATCATGAACTCAGACCACTCAATGAGCTTCGATGCTT
1 GCATCCATAATGAACTCAGACCACTCAATGAGCTTCGATGCTT
* *
27249998 GCATCCATAATGAACTCAGACCTCTCAATGAGCTTGGATGCT
1 GCATCCATAATGAACTCAGACCACTCAATGAGCTTCGATGCT
27250040 ACATACCTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
GCATCCATAATGAACTCAGACCACTCAATGAGCTTCGATGCTT
Found at i:27261444 original size:24 final size:25
Alignment explanation
Indices: 27261410--27261459 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
27261400 AAATGGGAGT
27261410 AAGAGGGAGGTAGGATGGCATAGTG
1 AAGAGGGAGGTAGGATGGCATAGTG
27261435 AAGA-GGAGGTAGGATGGCATAGTG
1 AAGAGGGAGGTAGGATGGCATAGTG
27261459 A
1 A
27261460 GGTCGGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.34, C:0.04, G:0.46, T:0.16
Consensus pattern (25 bp):
AAGAGGGAGGTAGGATGGCATAGTG
Found at i:27263373 original size:43 final size:42
Alignment explanation
Indices: 27263325--27263426 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
27263315 GTTTACATGG
*
27263325 AAGACCATGTCTGGGACATTGGCATTGTATTAA-GATTACGTGT
1 AAGACCATGTCTGGGACATTGGCATCG--TTAACGATTACGTGT
* *
27263368 AAGACCATGTTTGGGACATTGGCATCGTTAATCGATTTCGTGT
1 AAGACCATGTCTGGGACATTGGCATCGTTAA-CGATTACGTGT
*
27263411 AAGACCCTGTCTGGGA
1 AAGACCATGTCTGGGA
27263427 TAGTAGCATC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 4 0.08
43 48 0.92
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
AAGACCATGTCTGGGACATTGGCATCGTTAACGATTACGTGT
Found at i:27270312 original size:40 final size:41
Alignment explanation
Indices: 27270229--27270374 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
27270219 TTGAATGATG
* * * *
27270229 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
27270269 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27270309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27270350 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27270375 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 82 0.89
41 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:27270388 original size:40 final size:40
Alignment explanation
Indices: 27270230--27270393 Score: 120
Period size: 40 Copynumber: 4.1 Consensus size: 40
27270220 TGAATGATGT
* ** * * *
27270230 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTATAA
* ** *
27270270 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
27270309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
27270350 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
27270390 CCGG
1 CCGG
27270394 TTAAATTCCG
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 92 0.88
41 9 0.09
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:27270392 original size:80 final size:80
Alignment explanation
Indices: 27270229--27270407 Score: 177
Period size: 80 Copynumber: 2.2 Consensus size: 80
27270219 TTGAATGATG
* *
27270229 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
** *
27270294 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* * * * * *
27270309 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
27270372 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
27270389 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
27270408 TACGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
79 16 0.20
80 60 0.73
81 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:27278268 original size:40 final size:40
Alignment explanation
Indices: 27278122--27278305 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
27278112 TTGAATGATG
* * * * *
27278122 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
27278162 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27278202 TAC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27278240 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27278281 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27278306 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
38 30 0.24
39 13 0.10
40 75 0.59
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27285843 original size:43 final size:42
Alignment explanation
Indices: 27285795--27285961 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
27285785 ATCGAGTTGT
*
27285795 GATTACATGTGAGACCATGTCTGGGACATTGGCATTGTATTG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
* * *
27285837 AGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTAATT-
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATTG
* * * * *
27285881 GATTTCATGTAAAACCCTGTTTGGGACAGTGGCATTG-ATTTG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA-TTG
* * * *
27285923 TGGTAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
27285962 CAGCTGATGT
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 8 0.08
43 83 0.85
44 1 0.01
45 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
Found at i:27287911 original size:50 final size:50
Alignment explanation
Indices: 27287796--27287916 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
27287786 CAGATAACAC
* * * *
27287796 GCCATAAAGGCTTTTCACAAGATTAGCCATAAAGGATTTTCTAGAGAACTT
1 GCCATAAAGGCTTTCCA-AATAATAGCCATAAAGGACTTTCTAGAGAACTT
* *
27287847 GCCACAAAGACTTTCCAAATAATATGCCATAAA-GACTTTCTAGAGAA-TT
1 GCCATAAAGGCTTTCCAAATAATA-GCCATAAAGGACTTTCTAGAGAACTT
27287896 -CACTATAAAGGCTTTCCAAAT
1 GC-C-ATAAAGGCTTTCCAAAT
27287917 GGTACACCAC
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.02
49 3 0.05
50 33 0.56
51 22 0.37
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (50 bp):
GCCATAAAGGCTTTCCAAATAATAGCCATAAAGGACTTTCTAGAGAACTT
Found at i:27287951 original size:25 final size:25
Alignment explanation
Indices: 27287923--27287970 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27287913 AAATGGTACA
*
27287923 CCACAAAAGCTTTTTAAAGAATTTT
1 CCACAAAAGCTTTTCAAAGAATTTT
* *
27287948 CCACAAAGGCTTTTCAGAGAATT
1 CCACAAAAGCTTTTCAAAGAATT
27287971 CTCAAGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (25 bp):
CCACAAAAGCTTTTCAAAGAATTTT
Found at i:27292079 original size:42 final size:42
Alignment explanation
Indices: 27291986--27292104 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 42
27291976 CGATTATTTG
* * * * * *
27291986 TGGCACTTAGTGTGCAATATAATACAGCTTCAGC--TATATA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATATA
27292026 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATATA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATATA
* * * *
27292068 TGGCACTTAGTGTGTGGTTTGAGATAGCTTCGACTAT
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTAT
27292105 GTACGGCAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
40 28 0.42
42 39 0.58
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (42 bp):
TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATATA
Found at i:27293052 original size:30 final size:30
Alignment explanation
Indices: 27293018--27293074 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27293008 ACGGTTAGAG
*
27293018 ACACGGGCATGTGT-CTCAGCCGTGTATGAC
1 ACACGGGCATGT-TACACAGCCGTGTATGAC
*
27293048 ACACGGTCATGTTACACAGCCGTGTAT
1 ACACGGGCATGTTACACAGCCGTGTAT
27293075 CCCTTGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (30 bp):
ACACGGGCATGTTACACAGCCGTGTATGAC
Found at i:27294500 original size:29 final size:28
Alignment explanation
Indices: 27294434--27294527 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
27294424 AAGTCTACAT
* *
27294434 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
27294462 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
27294491 AAATTCATATGGCGCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
27294519 ACATTCATA
1 ACATTCATA
27294528 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:27294947 original size:93 final size:93
Alignment explanation
Indices: 27294788--27294962 Score: 350
Period size: 93 Copynumber: 1.9 Consensus size: 93
27294778 ATGTGTGACC
27294788 CCTGTATGGCTGAAATTTTTCTAAGTTTCCAAAATTTTCATATGTTATCGGTTTAGTCTCGAATC
1 CCTGTATGGCTGAAATTTTTCTAAGTTTCCAAAATTTTCATATGTTATCGGTTTAGTCTCGAATC
27294853 ACTTCTGAAGCATGTTTAAGGCCTCGTA
66 ACTTCTGAAGCATGTTTAAGGCCTCGTA
27294881 CCTGTATGGCTGAAATTTTTCTAAGTTTCCAAAATTTTCATATGTTATCGGTTTAGTCTCGAATC
1 CCTGTATGGCTGAAATTTTTCTAAGTTTCCAAAATTTTCATATGTTATCGGTTTAGTCTCGAATC
27294946 ACTTCTGAAGCATGTTT
66 ACTTCTGAAGCATGTTT
27294963 GATAAATGTA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (93 bp):
CCTGTATGGCTGAAATTTTTCTAAGTTTCCAAAATTTTCATATGTTATCGGTTTAGTCTCGAATC
ACTTCTGAAGCATGTTTAAGGCCTCGTA
Found at i:27301373 original size:20 final size:20
Alignment explanation
Indices: 27301348--27301388 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27301338 TTTATATAAT
27301348 ACGAGTTTACTAAGCTATGA
1 ACGAGTTTACTAAGCTATGA
*
27301368 ACGAGTTTACTAAGTTATGA
1 ACGAGTTTACTAAGCTATGA
27301388 A
1 A
27301389 GCTTACTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ACGAGTTTACTAAGCTATGA
Found at i:27310235 original size:79 final size:81
Alignment explanation
Indices: 27310099--27310283 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
27310089 TTGAATGATG
*
27310099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
27310163 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27310178 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27310240 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
27310258 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27310284 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:27310297 original size:40 final size:40
Alignment explanation
Indices: 27310100--27310283 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
27310090 TGAATGATGT
* * * *
27310100 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
27310140 CCGGACTAAGAT-CCGAAGGCAATTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
27310180 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
27310218 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27310259 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27310284 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:27310305 original size:79 final size:79
Alignment explanation
Indices: 27310100--27310316 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
27310090 TGAATGATGT
** * * * **
27310100 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
27310163 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
27310180 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
27310245 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
27310259 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
27310317 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:27323845 original size:27 final size:27
Alignment explanation
Indices: 27323807--27323919 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
27323797 AGGAAGCATT
* *
27323807 TCTGGCGGCTCTGCCACAAATATCCG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
27323834 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
27323862 TCCGGTGGCTCTACCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
27323889 TCTGGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
27323915 TCTGG
1 TCTGG
27323920 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.32
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:27325348 original size:46 final size:46
Alignment explanation
Indices: 27325298--27325473 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
27325288 TGGTTGAGCA
27325298 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27325344 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
27325389 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27325437 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27325474 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27325454 original size:93 final size:93
Alignment explanation
Indices: 27325295--27325466 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
27325285 GGATGGTTGA
* * * *
27325295 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
27325360 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
27325388 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
27325453 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27325467 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27328412 original size:15 final size:15
Alignment explanation
Indices: 27328392--27328460 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
27328382 GTATCTTGGG
27328392 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
27328407 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
27328422 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
27328437 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
27328452 TTTCTTTAT
1 TTTCTTTAT
27328461 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:27328454 original size:30 final size:30
Alignment explanation
Indices: 27328383--27328470 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
27328373 CATAGTATCG
* * * *
27328383 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
27328413 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
27328443 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
27328471 TGTCATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:27328471 original size:14 final size:14
Alignment explanation
Indices: 27328392--27328471 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
27328382 GTATCTTGGG
*
27328392 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
27328407 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
27328422 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
27328437 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
27328452 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
27328466 TTTCTT
1 TTTCTT
27328472 GTCATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:27330895 original size:46 final size:45
Alignment explanation
Indices: 27330842--27331015 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
27330832 TGGTTGAGCA
27330842 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * *
27330888 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
*
27330934 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGC-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
27330979 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27331016 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 35 0.33
46 62 0.59
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:27333956 original size:15 final size:15
Alignment explanation
Indices: 27333917--27333995 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
27333907 GTATCTTGGG
*
27333917 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
27333932 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
27333947 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
27333961 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
27333976 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
27333990 TTTCTT
1 TTTCTT
27333996 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:27333980 original size:29 final size:29
Alignment explanation
Indices: 27333908--27333994 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
27333898 CATAGTATCG
* * * *
27333908 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
27333938 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
27333967 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
27333995 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:27336424 original size:46 final size:46
Alignment explanation
Indices: 27336374--27336549 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
27336364 TGGTTGAGCA
27336374 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27336420 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
27336465 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27336513 CCCGAGCTCGTTGAGTTGAGTCAGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27336550 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 29 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27336530 original size:93 final size:93
Alignment explanation
Indices: 27336371--27336542 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
27336361 GGATGGTTGA
* * *
27336371 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27336436 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCAGAGTTCGTGAAATGTAACTAG
*
27336464 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
27336529 TGAGTCAGAGTTCG
66 TGAGTCAGAGTTCG
27336543 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCAGAGTTCGTGAAATGTAACTAG
Found at i:27340744 original size:40 final size:40
Alignment explanation
Indices: 27340696--27341002 Score: 542
Period size: 40 Copynumber: 7.7 Consensus size: 40
27340686 GCAAACACAT
* *
27340696 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
27340736 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** * *
27340776 TTGCCTTCGGGTCACAGCCCGAATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27340816 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27340856 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27340896 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
27340936 TTGCCTTCGGGTCTTAGCCCGGATATATCAACCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27340976 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
27341003 ATCCAATGCT
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:27349251 original size:42 final size:43
Alignment explanation
Indices: 27349172--27349273 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
27349162 TCCCGGACGT
* ** *
27349172 GGTCTTACATGTAACTCAATATCGATGCCTCTATCCCAGATAG
1 GGTCTTACATGTAAATCAATATCGATGCCGATATCCCAGACAG
* *
27349215 GGTCTTACATG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCGATATCCCAGACAG
* *
27349257 GGTCTTATACGTAAATC
1 GGTCTTACATGTAAATC
27349274 TCAATTCAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 29 0.59
43 20 0.41
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCGATATCCCAGACAG
Found at i:27353549 original size:43 final size:42
Alignment explanation
Indices: 27353480--27353587 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
27353470 CATATACTAA
* * *
27353480 ATATAGTCTTACATGTGATCTCATATCGATGCTAATAGCCTAG
1 ATATAGTCTTACACGTAATCTCATATCGATGC-AATAGCCCAG
* * * * *
27353523 CTATAGTCTTACACGAAATCTTATATCGATGCCATATCCCAG
1 ATATAGTCTTACACGTAATCTCATATCGATGCAATAGCCCAG
*
27353565 ATATGGTCTTACACGTAATCTCA
1 ATATAGTCTTACACGTAATCTCA
27353588 ACTAACTCTA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 26 0.49
43 27 0.51
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
ATATAGTCTTACACGTAATCTCATATCGATGCAATAGCCCAG
Found at i:27362955 original size:17 final size:18
Alignment explanation
Indices: 27362933--27362967 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
27362923 CTTAAGTTTT
27362933 GTACTTTTTAC-AAATTA
1 GTACTTTTTACTAAATTA
27362950 GTACTTTTTACTAAATTA
1 GTACTTTTTACTAAATTA
27362968 AGTCCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (18 bp):
GTACTTTTTACTAAATTA
Found at i:27366603 original size:30 final size:30
Alignment explanation
Indices: 27366569--27366629 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27366559 TCCTTAACTC
27366569 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27366599 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27366629 A
1 A
27366630 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27377767 original size:44 final size:42
Alignment explanation
Indices: 27377710--27377812 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
27377700 GATTGATATG
* * *
27377710 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTTC
1 TGATTTTGTGTAAGACCAAGTCTGGGACATCGGCATCGTA--TC
* *
27377753 TGTTTTATGTGTAAGACCAAGTCTGGGACATCGGTATCGTATC
1 TGATTT-TGTGTAAGACCAAGTCTGGGACATCGGCATCGTATC
27377796 TGATTTTGTGTAAGACC
1 TGATTTTGTGTAAGACC
27377813 CTATCTGCGA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
42 11 0.21
43 12 0.23
44 28 0.54
45 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCAAGTCTGGGACATCGGCATCGTATC
Found at i:27381102 original size:40 final size:40
Alignment explanation
Indices: 27381019--27381238 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
27381009 ACCCAAGTAT
** * *
27381019 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27381057 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27381097 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
27381137 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * *
27381177 CTTCGGATCTTAGCCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27381217 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
27381239 CATTCGAATA
Statistics
Matches: 158, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 127 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27386072 original size:21 final size:20
Alignment explanation
Indices: 27386046--27386085 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
27386036 CGAAATGTGT
27386046 GAATAT-ATATAAGCTATGGCC
1 GAATATGAT-TAAGCT-TGGCC
27386067 GAATATGATTAAGCTTGGC
1 GAATATGATTAAGCTTGGC
27386086 TATTATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GAATATGATTAAGCTTGGCC
Found at i:27399707 original size:20 final size:20
Alignment explanation
Indices: 27399669--27399739 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
27399659 CATTAAATTA
27399669 AATTTAATATT-AATATAAT
1 AATTTAATATTAAATATAAT
27399688 AACTTTAATATTAAAT-TAAT
1 AA-TTTAATATTAAATATAAT
** *
27399708 AAAATAATATTAAATCTAAT
1 AATTTAATATTAAATATAAT
27399728 -A-TT-ATATTAAAT
1 AATTTAATATTAAAT
27399740 TTATTAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 9 0.20
18 1 0.02
19 14 0.30
20 19 0.41
21 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAATATTAAATATAAT
Found at i:27399720 original size:25 final size:26
Alignment explanation
Indices: 27399672--27399731 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
27399662 TAAATTAAAT
*
27399672 TTAATATTAATATAATAACTTTAATA
1 TTAATATTAATAAAATAACTTTAATA
27399698 TTAA-ATTAATAAAATAA-TATTAA-A
1 TTAATATTAATAAAATAACT-TTAATA
27399722 TCTAATATTA
1 T-TAATATTA
27399732 TATTAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 3 0.10
25 19 0.63
26 8 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAATATTAATAAAATAACTTTAATA
Found at i:27427668 original size:6 final size:6
Alignment explanation
Indices: 27427653--27427683 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
27427643 TTTATACATG
*
27427653 TATGCA TATGCC TATGCC TATGCC TATGCC T
1 TATGCC TATGCC TATGCC TATGCC TATGCC T
27427684 TTGAGATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (6 bp):
TATGCC
Found at i:27430385 original size:43 final size:42
Alignment explanation
Indices: 27430248--27430416 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 42
27430238 TACATAACTC
* * * * *
27430248 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA
* * * * * * *
27430289 ATATCAATGTCACTGTCCCCGACAGGGTCTTATACATAATCGA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA
* *
27430332 TTAACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-AA
* * *
27430376 ATACAATGCCAATGTTCTAGACATGGTCTTACATGTAATCA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
27430417 CATCTCGGTA
Statistics
Matches: 98, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
41 3 0.03
42 7 0.07
43 85 0.87
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:27436587 original size:46 final size:46
Alignment explanation
Indices: 27436537--27436665 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
27436527 TGGTTGAGCA
* *
27436537 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
27436583 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
27436629 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27436666 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:27439382 original size:23 final size:23
Alignment explanation
Indices: 27439356--27439430 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
27439346 CAAATGGTCG
27439356 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* ***
27439379 ATGTG-TGATAAG-GCCAAA-TGGCCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
27439403 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
27439426 ATGTG
1 ATGTG
27439431 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:27439399 original size:47 final size:47
Alignment explanation
Indices: 27439340--27439765 Score: 631
Period size: 47 Copynumber: 9.1 Consensus size: 47
27439330 GAAATGATAG
* * * *
27439340 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
27439387 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27439434 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27439481 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATCTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27439528 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27439575 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27439622 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27439669 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
27439715 CAGGGCCGAGT-GCCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAG-CCGATGTGATGAATGTGAAAGTGTATATATGTGA
27439762 TAAG
1 TAAG
27439766 TCTCGAAGGG
Statistics
Matches: 353, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 38 0.11
47 314 0.89
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:27439956 original size:37 final size:37
Alignment explanation
Indices: 27439884--27439962 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
27439874 CCGAGCTCTA
* * * * *
27439884 AAGACCCGATGACTACGTTTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
*
27439921 AAGACCCGATAACTTCGTGTGGAGATTATGCCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
27439958 AAGAC
1 AAGAC
27439963 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
Found at i:27451620 original size:6 final size:6
Alignment explanation
Indices: 27451605--27451635 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
27451595 TTTATACATG
*
27451605 TATGCA TATGCC TATGCC TATGCC TATGCC T
1 TATGCC TATGCC TATGCC TATGCC TATGCC T
27451636 TTTAGATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (6 bp):
TATGCC
Found at i:27456150 original size:34 final size:33
Alignment explanation
Indices: 27456092--27456155 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
27456082 TATTAAAAAA
*
27456092 GGTTGGGATAGACCTGTCTAAGGCAACCTTAAT
1 GGTTAGGATAGACCTGTCTAAGGCAACCTTAAT
*
27456125 GGTTAGGATAGACCATTTCTAAGGCAACCTT
1 GGTTAGGATAGACC-TGTCTAAGGCAACCTT
27456156 TAAAAAAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (33 bp):
GGTTAGGATAGACCTGTCTAAGGCAACCTTAAT
Found at i:27456174 original size:145 final size:144
Alignment explanation
Indices: 27455999--27456267 Score: 344
Period size: 145 Copynumber: 1.9 Consensus size: 144
27455989 AGTTCTTGTT
* * * * *
27455999 TAAGGCAACTTTTAAAAACGATTGGGATAGAGC-AGTCTAAAGCAACCTTAAAAAGGTTGGGATC
1 TAAGGCAACCTTTAAAAAAGATCGGAATAGA-CTAGTCTAAAGCAACCTTAAAAAGGTTGGGATA
*
27456063 GA-CATTGTCTAAAACAACCTATTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAATGG
65 GACCA-TGTCT-AAACAACCTATTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAATGG
27456127 TTAGGATAGACCATTTC
128 TTAGGATAGACCATTTC
* * *
27456144 TAAGGCAACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAG
1 TAAGGCAACCTTTAAAAAAGATCGGAATAGACTAGTCTAAAGCAACCTTAAAAAGGTTGGGATAG
* *** * * * *
27456209 ACCATGTCTGAGGTATCTTTTAAAAAAGGTTGGGATTGACCTGTTTAAAGCAACCTTAA
66 ACCATGTCTAAACAACCTATTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAA
27456268 AAAGGTTGGG
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
144 42 0.40
145 61 0.58
146 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (144 bp):
TAAGGCAACCTTTAAAAAAGATCGGAATAGACTAGTCTAAAGCAACCTTAAAAAGGTTGGGATAG
ACCATGTCTAAACAACCTATTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAATGGTTA
GGATAGACCATTTC
Found at i:27456189 original size:37 final size:35
Alignment explanation
Indices: 27456033--27456210 Score: 105
Period size: 38 Copynumber: 4.9 Consensus size: 35
27456023 GGATAGAGCA
* * * * *
27456033 GTCTAAAGCAACCTTAAAAAGGTTGGGATCGACATT
1 GTCTAAGGCAACCTTAAAAAGGTCGGAATAGAC-TC
** * *
27456069 GTCTAAAACAACCTATTAAAAAAGGTTGGGATAGAC-C
1 GTCTAAGGCAACC--TT-AAAAAGGTCGGAATAGACTC
* *
27456106 TGTCTAAGGCAACCTT--AATGGTTAGG-ATAGAC-C
1 -GTCTAAGGCAACCTTAAAAAGG-TCGGAATAGACTC
*
27456139 ATTTCTAAGGCAACCTTTAAAAAAGGTCGGAATAGACTC
1 --GTCTAAGGCAACC-TT-AAAAAGGTCGGAATAGACTC
* *
27456178 GTCTAAGGCAACCTTAAAAAGGTTGGGATAGAC
1 GTCTAAGGCAACCTTAAAAAGGTCGGAATAGAC
27456211 CATGTCTGAG
Statistics
Matches: 117, Mismatches: 13, Indels: 25
0.75 0.08 0.16
Matches are distributed among these distances:
33 11 0.09
34 16 0.14
35 18 0.15
36 16 0.14
37 15 0.13
38 23 0.20
39 18 0.15
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (35 bp):
GTCTAAGGCAACCTTAAAAAGGTCGGAATAGACTC
Found at i:27456238 original size:73 final size:73
Alignment explanation
Indices: 27455999--27456282 Score: 299
Period size: 73 Copynumber: 3.9 Consensus size: 73
27455989 AGTTCTTGTT
* * * * * *
27455999 TAAGGCAACTTTTAAAAACGATTGGGATAGAGCAGTCTAAAGCAACCTTAAAAAGGTTGGGATCG
1 TAAGGAAACTTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAG
27456064 A-CATTGTC
66 ACCA-TGTC
* * * * *
27456072 TAA-AACAACCTATTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTT--AATGGTTAGGAT
1 TAAGGA-AA-CTTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGAT
*
27456134 AGACCATTTC
64 AGACCATGTC
* * * * *
27456144 TAAGGCAACCTTTAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATA
1 TAAGGAAACTTTTAAAAAAGGTTGGGATAGACCT-GTCTAAAGCAACCTTAAAAAGGTTGGGATA
27456208 GACCATGTC
65 GACCATGTC
* * * * *
27456217 TGAGGTATCTTTTAAAAAAGGTTGGGATTGACCTGTTTAAAGCAACCTTAAAAAGGTTGGGATAG
1 TAAGGAAACTTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAG
27456282 A
66 A
27456283 TATTATTTAA
Statistics
Matches: 173, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
70 2 0.01
71 34 0.20
72 20 0.12
73 80 0.46
74 37 0.21
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (73 bp):
TAAGGAAACTTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAG
ACCATGTC
Found at i:27456306 original size:73 final size:74
Alignment explanation
Indices: 27456011--27456323 Score: 298
Period size: 73 Copynumber: 4.3 Consensus size: 74
27456001 AGGCAACTTT
* * * * *
27456011 TAAAAACGATTGGGATAGAGCAGTCTAAAGCAACCTTAAAAAGGTTGGGATCGA-CATTGTCTAA
1 TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTAA
27456075 AACAACCTA
66 AACAACCTA
* * *
27456084 TTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTT--AATGGTTAGGATAGACCATT-TCTA
1 -TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTA
** *
27456146 AGGCAACCTT
65 AAACAACCTA
* * * *
27456156 TAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCA-TGTCTG
1 TAAAAAAGGTTGGGATAGACCT-GTCTAAAGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTA
*** * * *
27456219 AGGTATCTTT
65 AAACAACCTA
* * * * *
27456229 TAAAAAAGGTTGGGATTGACCTGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA-TATTATTTAA
1 TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTAA
27456293 AACAACCTA
66 AACAACCTA
*
27456302 TAAAAAAAAGATTGGGATAGAC
1 T--AAAAAAGGTTGGGATAGAC
27456324 ACGTATAATA
Statistics
Matches: 194, Mismatches: 36, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
70 2 0.01
71 32 0.16
72 25 0.13
73 84 0.43
74 34 0.18
75 17 0.09
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (74 bp):
TAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTAA
AACAACCTA
Found at i:27456463 original size:6 final size:6
Alignment explanation
Indices: 27456436--27456474 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
27456426 TAAAAAAATT
*
27456436 TTAAAA TTTAAAA TACAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA -TTAAAA T-TAAAA TTAAAA TTAAAA TTAAAA T
27456475 AAAGATTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:27459316 original size:47 final size:47
Alignment explanation
Indices: 27459232--27459353 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
27459222 ATCAAATAAA
* *
27459232 TAATGCATACTTTACCCGGGTAAAGTATGCATTATTAGTGAATCTGC
1 TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGC
*
27459279 TAATACATATTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGC
1 TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGC
27459326 TAATACATACTTTATCCGGGTAAAGTAT
1 TAATACATACTTTATCCGGGTAAAGTAT
27459354 CCATACATTC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (47 bp):
TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGC
Found at i:27460021 original size:22 final size:22
Alignment explanation
Indices: 27459973--27460022 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
27459963 AATCGCAAAC
**
27459973 CCATAATCACAAAACCCCAAAT
1 CCATAATCACAAAACCAAAAAT
*
27459995 CCATAATCATAAAATCCAAAAAT
1 CCATAATCACAAAA-CCAAAAAT
27460018 -CATAA
1 CCATAA
27460023 ACCCCAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (22 bp):
CCATAATCACAAAACCAAAAAT
Found at i:27460061 original size:37 final size:37
Alignment explanation
Indices: 27459984--27460061 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
27459974 CATAATCACA
* * * *
27459984 AAACCCCAAATCCATAATCATAAAATCCAAAAATCAT
1 AAACCCCAAATCCATAAACACAAAACCCAAAAACCAT
* *
27460021 AAACCCCAAA-CCTATAAACACAAAACCCTAAAACCTT
1 AAACCCCAAATCC-ATAAACACAAAACCCAAAAACCAT
27460058 AAAC
1 AAAC
27460062 TATATAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 2 0.06
37 32 0.94
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (37 bp):
AAACCCCAAATCCATAAACACAAAACCCAAAAACCAT
Found at i:27460594 original size:132 final size:132
Alignment explanation
Indices: 27460356--27460988 Score: 1002
Period size: 132 Copynumber: 4.8 Consensus size: 132
27460346 CTGACAAGTG
* * *
27460356 TATCCCAACACTTAGGAAAGTGTCGCCTCAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
* * * *
27460421 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACGCTTATACAAAGAGTTGGCCAAAGCGTAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCACAACCCTTATACAAAGAGTTGGCCAAAGCATAG
27460486 TC
131 TC
* * *
27460488 TATCCCAACACTTAGAAAAGCGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
27460553 TTATTCAAGCGTTGCCTTAGGCATACATATCACAACCCTTATACAAAGAGTTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCACAACCCTTATACAAAGAGTTGGCCAAAGCATAG
27460618 TC
131 TC
* * * *
27460620 TATACCAACACTTAGGAAAGTGTCGCCCCAAAAGTATCGTCTTAGGACAACACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
*
27460685 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCACAACCCTTATACAAAGAGTTGGCCAAAGCATAG
27460750 TC
131 TC
* * * * *
27460752 TATCCCAACACTTAGGGAAGTGTCACCGCAAAAGTGTCTTCTTAGGACTACACAGAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
27460817 TTATTCAAGCGTTGCCTTAGGCATACATATC-CTAACCCTTATACAAAGAGTTGGCCAAAGCATA
66 TTATTCAAGCGTTGCCTTAGGCATACATATCAC-AACCCTTATACAAAGAGTTGGCCAAAGCATA
*
27460881 CTC
130 GTC
* * *
27460884 TATCCCAACACTTAGGAAA-TGTCGTCACAAAAATGTCGTCTTAGGACTACACAAAAACCAACTC
1 TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
*
27460948 TTATTCAAGCGTTGCTTTAGGCATACATAT-ACCAACCCTTA
66 TTATTCAAGCGTTGCCTTAGGCATACATATCA-CAACCCTTA
27460989 GGAAAATGTC
Statistics
Matches: 464, Mismatches: 34, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
131 76 0.16
132 388 0.84
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (132 bp):
TATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACATATCACAACCCTTATACAAAGAGTTGGCCAAAGCATAG
TC
Found at i:27461356 original size:20 final size:18
Alignment explanation
Indices: 27461331--27461398 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 18
27461321 GCTGTTACAA
27461331 AAAAAATATAAATATAAATT
1 AAAAAA-ATAAATA-AAATT
*
27461351 AAAAAAATACATAAAATTTT
1 AAAAAAATAAATAAAA--TT
*
27461371 AAAAAAATATATAAAATACT
1 AAAAAAATAAATAAAAT--T
27461391 AAAAAAAT
1 AAAAAAAT
27461399 TATAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.10
19 6 0.14
20 32 0.76
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAAATAAATAAAATT
Found at i:27461402 original size:19 final size:20
Alignment explanation
Indices: 27461350--27461404 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
27461340 AAATATAAAT
* **
27461350 TAAAAAAATACATAAAATTT
1 TAAAAAAATATATAAAATAC
27461370 TAAAAAAATATATAAAATAC
1 TAAAAAAATATATAAAATAC
27461390 TAAAAAAAT-TATAAA
1 TAAAAAAATATATAAA
27461405 TATATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAAAAATATATAAAATAC
Found at i:27462145 original size:18 final size:17
Alignment explanation
Indices: 27462124--27462177 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
27462114 ATTTTCTATA
*
27462124 TTTTTATAAATTTTAAT
1 TTTTTTTAAATTTTAAT
*
27462141 TTTTTTTGAACTTTT-AT
1 TTTTTTT-AAATTTTAAT
*
27462158 CTATTTTTAAATTTTAAT
1 -TTTTTTTAAATTTTAAT
27462176 TT
1 TT
27462178 ATATTTTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTTTAAATTTTAAT
Found at i:27462823 original size:41 final size:42
Alignment explanation
Indices: 27462742--27462823 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
27462732 ATAATTATGG
* *
27462742 GTTTAATTATTTTAATAATAATGTTTTAAAAAATTATAATAT
1 GTTTAATTATTTTAATAATAATGTTGTAAAAAACTATAATAT
*
27462784 GTTT-ATTAATTTTAA-AATAATTGTTGTAAAATACT-TAATA
1 GTTTAATT-ATTTTAATAATAA-TGTTGTAAAAAACTATAATA
27462824 ATAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (42 bp):
GTTTAATTATTTTAATAATAATGTTGTAAAAAACTATAATAT
Found at i:27463277 original size:22 final size:22
Alignment explanation
Indices: 27463256--27463297 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27463246 TTTGAATATA
*
27463256 AATATTTATTATA-AAAATTAT
1 AATATTAATTATATAAAATTAT
*
27463277 AATGTTAATTATATAAAATTA
1 AATATTAATTATATAAAATTA
27463298 GAAAATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AATATTAATTATATAAAATTAT
Found at i:27467143 original size:27 final size:27
Alignment explanation
Indices: 27467111--27467170 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
27467101 GGCAGAGGCA
*
27467111 GCACCAGTGAAGCTTATGCCATAAGTG
1 GCACCAGTGAAGCCTATGCCATAAGTG
* *
27467138 GTACCAGTGAAGCCTATGCCATAGGTG
1 GCACCAGTGAAGCCTATGCCATAAGTG
27467165 GCACCA
1 GCACCA
27467171 ACACTCCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (27 bp):
GCACCAGTGAAGCCTATGCCATAAGTG
Found at i:27468520 original size:12 final size:12
Alignment explanation
Indices: 27468503--27468529 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27468493 AATAGTTACC
27468503 TTTAAATTTGAA
1 TTTAAATTTGAA
27468515 TTTAAATTTGAA
1 TTTAAATTTGAA
27468527 TTT
1 TTT
27468530 TTATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTAAATTTGAA
Found at i:27472921 original size:42 final size:42
Alignment explanation
Indices: 27472859--27472938 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
27472849 AGAGACATGA
* * **
27472859 GCGTGTGTCTTAGCCGTGTGTGATACGTGGCCTAGAACACGT
1 GCGTGTGTCTCAGCCGTGTGTGAAACACGGCCTAGAACACGT
* *
27472901 GCGTGTGTCTCAGTCTTGTGTGAAACACGGCCTAGAAC
1 GCGTGTGTCTCAGCCGTGTGTGAAACACGGCCTAGAAC
27472939 TTGGCATCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.28
Consensus pattern (42 bp):
GCGTGTGTCTCAGCCGTGTGTGAAACACGGCCTAGAACACGT
Found at i:27477576 original size:27 final size:27
Alignment explanation
Indices: 27477545--27477722 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
27477535 TAAATTGTAC
27477545 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
27477572 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27477598 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27477626 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27477654 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27477681 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27477708 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27477723 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27477686 original size:82 final size:81
Alignment explanation
Indices: 27477546--27477701 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
27477536 AAATTGTACA
* *
27477546 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
27477611 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
27477627 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACTAAGT
*
27477691 GTGCGAGTTGA
64 GTGCGAATTGA
27477702 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27477713 original size:82 final size:81
Alignment explanation
Indices: 27477542--27477722 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
27477532 GATTAAATTG
* *
27477542 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
27477607 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
27477623 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACT
* **
27477687 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27477705 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27477723 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27485750 original size:27 final size:27
Alignment explanation
Indices: 27485719--27485896 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27485709 TAAATTGTAC
27485719 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27485746 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27485772 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27485800 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27485828 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27485855 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27485882 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27485897 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27485833 original size:82 final size:81
Alignment explanation
Indices: 27485720--27485875 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27485710 AAATTGTACA
* *
27485720 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27485784 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27485801 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27485866 TGCGAGTTGA
65 TGCGAATTGA
27485876 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27485887 original size:82 final size:81
Alignment explanation
Indices: 27485716--27485896 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27485706 GATTAAATTG
* *
27485716 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27485781 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27485797 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27485861 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27485879 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27485897 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27489540 original size:41 final size:43
Alignment explanation
Indices: 27489369--27489562 Score: 272
Period size: 42 Copynumber: 4.6 Consensus size: 43
27489359 CTGAACTCAT
* * * *
27489369 TCACCGGTATTA-CGCCTTCTAGGCTCAAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
*
27489411 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
* **
27489453 TCA-CTGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
*
27489495 TCACCGGCATTATAGCCTACTA-GCTCGAA-CCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
27489536 TCACCGGCATTATAGCCTGCTAGGCTC
1 TCACCGGCATTATAGCCTGCTAGGCTC
27489563 AAAGGCTCGA
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
41 38 0.28
42 83 0.61
43 16 0.12
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
Found at i:27503238 original size:40 final size:40
Alignment explanation
Indices: 27503140--27503309 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
27503130 TCCTCGTTCA
* * ** *
27503140 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
27503179 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
27503219 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
* * * * *
27503259 AATGCCTTCGGTACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
27503299 AAGGCCTTCGG
1 AATGCCTTCGG
27503310 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
Found at i:27503346 original size:80 final size:79
Alignment explanation
Indices: 27503176--27503362 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 79
27503166 TAGTAACTCA
* * *
27503176 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
* *
27503241 GATTTAACAACTCG
66 GATATAACAACTAG
* * * **
27503255 CACGAATGCCTTCGGTACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTC-GGATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACC
*
27503319 CGGATATATTC-ACTTAG
64 CGGATATA-ACAAC-TAG
* *
27503336 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
27503363 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
79 6 0.07
80 78 0.87
81 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
GATATAACAACTAG
Found at i:27503371 original size:41 final size:41
Alignment explanation
Indices: 27503294--27503371 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27503284 TTAATATCTC
* * *
27503294 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27503335 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27503372 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27507198 original size:40 final size:40
Alignment explanation
Indices: 27507110--27507248 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
27507100 GGATGATAAT
*
27507110 CGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTCACTAGTTC
27507151 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAGTTC
* *
27507191 TGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAGTTC
27507231 CGGGCTAAGTCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
27507249 TACTTGGCTT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
40 66 0.71
41 23 0.25
42 4 0.04
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAGTTC
Found at i:27508852 original size:15 final size:15
Alignment explanation
Indices: 27508834--27508864 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27508824 ATATTTATAA
27508834 AATTATTATTATTAT
1 AATTATTATTATTAT
27508849 AATTATTATTATTAT
1 AATTATTATTATTAT
27508864 A
1 A
27508865 TAGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:27510522 original size:65 final size:65
Alignment explanation
Indices: 27510418--27510548 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
27510408 CCCCAAAGGT
*
27510418 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCTATGTTATTATTAACTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTAACTGA
* *
27510483 TAAGGTTGACTTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTAACTGA
27510548 T
1 T
27510549 GCATGGGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTAACTGA
Found at i:27514442 original size:45 final size:45
Alignment explanation
Indices: 27514392--27514479 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
27514382 AAACATGTGT
*
27514392 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
27514437 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
27514480 CACATAGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:27514477 original size:21 final size:21
Alignment explanation
Indices: 27514408--27514483 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
27514398 CATCATGAAC
*
27514408 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
27514429 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
27514453 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
27514474 TCAGATCACA
1 TCAGACCACA
27514484 TAGTTCCTCG
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.45
22 5 0.12
23 4 0.10
24 10 0.24
25 2 0.05
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:27524382 original size:27 final size:27
Alignment explanation
Indices: 27524352--27524439 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
27524342 TGGAGGAAGA
*
27524352 GTTCTGGTGGCTATGCCATAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
27524379 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* * * *
27524406 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTATGCCACAAATATCT
27524433 GTTCTGG
1 GTTCTGG
27524440 CAGCTTTGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.09
27 36 0.65
28 14 0.25
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:27529799 original size:93 final size:93
Alignment explanation
Indices: 27529671--27529841 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
27529661 GCCCCCAAGT
* * *
27529671 GAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCTGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27529736 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
27529764 GAACTCGGAGTCAACTCAACGAGTTC-GAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCAG-ACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27529828 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
27529842 TGAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27529825 original size:46 final size:47
Alignment explanation
Indices: 27529667--27529836 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 47
27529657 ACCCGCCCCC
* * * *
27529667 AAGTGAACTCAGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCATCCAT
* * * *
27529713 AAGTGAACTCTGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-T
1 AAGTGAACTCGGACTCAACTCAACGAG-TTCGA-GAC-A-TTCGCATCCAT
* * *
27529761 CA-CGAACTCGGAGTCAACTCAACGAGTTCGA-ACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCATCCAT
27529806 AAGTGAACTCGGACTCAACTCAACGAGTTCG
1 AAGTGAACTCGGACTCAACTCAACGAGTTCG
27529837 GATGCTGAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.57
47 22 0.22
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCATCCAT
Found at i:27529857 original size:46 final size:47
Alignment explanation
Indices: 27529667--27529857 Score: 116
Period size: 46 Copynumber: 4.1 Consensus size: 47
27529657 ACCCGCCCCC
* * * **
27529667 AAGTGAACTCAGACTCAACTCAACGAGCTC--AGGC-GTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTGAAC-CATCC-T
* * *
27529713 AAGTGAACTCTGACTCAACTCAACGAGTTTGGATGCCTAGTTA-CAT-CT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CT-G-AACCATCCT
* * * * *
27529761 CA-CGAACTCGGAGTCAACTCAACGAGTTC-GA-AC--ATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTGA-AC-CATCC-T
27529806 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTGAACCATCCT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTGAACCATCCT
27529853 -AGTGA
1 AAGTGA
27529858 CATATCACTT
Statistics
Matches: 111, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.53
47 26 0.23
48 10 0.09
49 3 0.03
50 4 0.04
51 1 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTGAACCATCCT
Found at i:27542503 original size:44 final size:44
Alignment explanation
Indices: 27542450--27542616 Score: 174
Period size: 47 Copynumber: 3.6 Consensus size: 44
27542440 TATGCGTGCT
* *
27542450 GATGCGTGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTTAGCC
* * * * *
27542494 GATGCGTGTCCAAGACACGTCTTACACTAGCTATATCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-ACATCTCTT-A-GCC
* *
27542541 GATGCATGTCCCAGATATGTCTTACTCTAGCACTCATCTCTGT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTCT-TAGCC
27542587 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
27542617 GGCTCTCATA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 29 0.29
45 6 0.06
46 9 0.09
47 42 0.42
48 14 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTTAGCC
Found at i:27546023 original size:39 final size:40
Alignment explanation
Indices: 27545902--27546124 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
27545892 GCTCCTCGTT
* *
27545902 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
27545942 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
27545982 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27546021 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
27546060 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
27546101 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27546125 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 87 0.53
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27546085 original size:118 final size:119
Alignment explanation
Indices: 27545902--27546124 Score: 289
Period size: 118 Copynumber: 1.9 Consensus size: 119
27545892 GCTCCTCGTT
*
27545902 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
27545967 AT-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
66 ATATT-GTAACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCACA
* **
27546021 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
27546082 CGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
27546125 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
117 15 0.16
118 56 0.61
119 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACA
Found at i:27552704 original size:48 final size:48
Alignment explanation
Indices: 27552652--27552939 Score: 486
Period size: 48 Copynumber: 6.0 Consensus size: 48
27552642 TGTTACAACA
* * * *
27552652 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
27552700 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27552748 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
27552796 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27552844 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
27552892 TTCACATTAGCCATTCGGCATTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27552940 ATATTTATCT
Statistics
Matches: 226, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 226 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:27552916 original size:144 final size:144
Alignment explanation
Indices: 27552652--27552939 Score: 540
Period size: 144 Copynumber: 2.0 Consensus size: 144
27552642 TGTTACAACA
* *
27552652 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
* *
27552717 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCATTACCACATACACA
27552782 TATCACACATATAT
131 TATCACACATATAT
27552796 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
27552861 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCATTACCACATACACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCATTACCACATACACA
27552926 TATCACACATATAT
131 TATCACACATATAT
27552940 ATATTTATCT
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (144 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCATTACCACATACACA
TATCACACATATAT
Found at i:27556018 original size:40 final size:40
Alignment explanation
Indices: 27555984--27556284 Score: 451
Period size: 40 Copynumber: 7.5 Consensus size: 40
27555974 CCAGCATGAT
* * * *
27555984 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
27556024 TGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27556064 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27556104 TGCTCTTTGGGACTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27556144 TACTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27556184 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27556223 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27556263 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAGCCCGG
27556285 CTATACAACT
Statistics
Matches: 235, Mismatches: 25, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
39 38 0.16
40 197 0.84
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:27556248 original size:119 final size:120
Alignment explanation
Indices: 27555984--27556284 Score: 469
Period size: 119 Copynumber: 2.5 Consensus size: 120
27555974 CCAGCATGAT
* * * * * ** * *
27555984 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACAGATA
1 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
27556049 TATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
27556104 TGCTCTTTGGGACTTAACCCGGATACATCACTAGCACGAATACTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
27556169 CATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
27556223 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAATGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG
27556285 CTATACAACT
Statistics
Matches: 165, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
119 88 0.53
120 77 0.47
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:27558403 original size:48 final size:48
Alignment explanation
Indices: 27558342--27558629 Score: 486
Period size: 48 Copynumber: 6.0 Consensus size: 48
27558332 TGTTACAACA
* * *
27558342 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
27558390 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27558438 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
27558486 TTCACATTATCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27558534 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
27558582 TTCACATTAGCCATTTGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27558630 ATTTATCTTG
Statistics
Matches: 225, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 225 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:27558602 original size:144 final size:144
Alignment explanation
Indices: 27558342--27558629 Score: 540
Period size: 144 Copynumber: 2.0 Consensus size: 144
27558332 TGTTACAACA
*
27558342 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
*
27558407 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATACACA
27558472 TATCACACATATAT
131 TATCACACATATAT
*
27558486 TTCACATTATCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
*
27558551 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTTGGCTTTACCACATACACA
66 GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATACACA
27558616 TATCACACATATAT
131 TATCACACATATAT
27558630 ATTTATCTTG
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (144 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATACACA
TATCACACATATAT
Found at i:27575077 original size:16 final size:18
Alignment explanation
Indices: 27575050--27575083 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27575040 TAGAATTGGG
27575050 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
27575067 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
27575084 GATGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:27579762 original size:48 final size:47
Alignment explanation
Indices: 27579652--27579865 Score: 209
Period size: 46 Copynumber: 4.6 Consensus size: 47
27579642 GATATGTGTG
** * * *
27579652 CTAGTGTAAGACATGTCTGGGACATGCATCAGCC-ACAGCAT-GAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAG-ATATACAA
* * *
27579698 CTAGTGTAAGATATGTCTAGGACATGCATCAGCCTTGAGATATTTCAA
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATA-TACAA
* * ** * *
27579746 CTAGTGTAAGACATGTCTGGGACATGCATGAGCATTGAGA-CGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
* * *
27579792 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAAA
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATAC-AA
* *
27579840 CTAGTGTAAGACTTGTCTAGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
27579866 GCGTCAGCTT
Statistics
Matches: 135, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
46 70 0.52
47 3 0.02
48 62 0.46
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
Found at i:27579808 original size:94 final size:94
Alignment explanation
Indices: 27579652--27579865 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 94
27579642 GATATGTGTG
* *
27579652 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCTAGTGTAAGATATGTCTA
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCACGAGAGCTAGTGTAAGACATGTCTA
* *
27579717 GGACATGCATCAGCCTTGAGATATTTC-AA
66 GGACATGCATCAGCCTCGAGATA-TACAAA
* *
27579746 CTAGTGTAAGACATGTCTGGGACATGCATGAG-CATTGAG-ACGAGAGCTAGTGTAAGACATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGCACGAGAGCTAGTGTAAGACATGTC
* * *
27579809 TGGGACATGCATCGGCCTCGTGATATACAAA
64 TAGGACATGCATCAGCCTCGAGATATACAAA
* *
27579840 CTAGTGTAAGACTTGTCTAGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
27579866 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
93 4 0.04
94 100 0.94
95 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCACGAGAGCTAGTGTAAGACATGTCTA
GGACATGCATCAGCCTCGAGATATACAAA
Found at i:27598116 original size:81 final size:82
Alignment explanation
Indices: 27597968--27598121 Score: 247
Period size: 81 Copynumber: 1.9 Consensus size: 82
27597958 TCACAAAGGG
* ** *
27597968 GCAAAACAATCATTTTACCACATAAGGGAAAAAATAGTTGTTTTACCATATAAAGGCAAAACAAT
1 GCAAAACAATCATTTTACCACATAAGGGAAAAAATAATCATTTTACCACATAAAGGCAAAACAAT
27598033 CATTTTATTAATTTGGT
66 CATTTTATTAATTTGGT
* *
27598050 GCAAAACAATCATTTTACCACATAAGGG-CAAAATAATCATTTTACCACATAAGGGCAAAACAAT
1 GCAAAACAATCATTTTACCACATAAGGGAAAAAATAATCATTTTACCACATAAAGGCAAAACAAT
27598114 CATTTTAT
66 CATTTTAT
27598122 CACATAAGGA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
81 38 0.58
82 28 0.42
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (82 bp):
GCAAAACAATCATTTTACCACATAAGGGAAAAAATAATCATTTTACCACATAAAGGCAAAACAAT
CATTTTATTAATTTGGT
Found at i:27598142 original size:26 final size:27
Alignment explanation
Indices: 27597966--27598144 Score: 193
Period size: 27 Copynumber: 6.6 Consensus size: 27
27597956 TATCACAAAG
27597966 GGGCAAAACAATCATTTTACCACATAA
1 GGGCAAAACAATCATTTTACCACATAA
* ** *
27597993 GGG-AAAAAATAGTTGTTTTACCATATAA
1 GGGCAAAACA-A-TCATTTTACCACATAA
* ** **
27598021 AGGCAAAACAATCATTTTATTA-ATTT
1 GGGCAAAACAATCATTTTACCACATAA
27598047 GGTGCAAAACAATCATTTTACCACATAA
1 GG-GCAAAACAATCATTTTACCACATAA
*
27598075 GGGCAAAATAATCATTTTACCACATAA
1 GGGCAAAACAATCATTTTACCACATAA
*
27598102 GGGCAAAACAATCATTTTATCACATAA
1 GGGCAAAACAATCATTTTACCACATAA
* *
27598129 -GGAAAAACAGTCATTT
1 GGGCAAAACAATCATTT
27598145 ATCAATTTGG
Statistics
Matches: 125, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
26 22 0.18
27 78 0.62
28 20 0.16
29 5 0.04
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (27 bp):
GGGCAAAACAATCATTTTACCACATAA
Found at i:27604759 original size:49 final size:51
Alignment explanation
Indices: 27604682--27604813 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 51
27604672 ATGTCACTAG
27604682 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATA-CTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTT
* * * *
27604730 TG-GTCACAAGTGTGATACTATGTAAAGGCCACTTTGTGAAGAAAGATAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AAGATAGCTT
*
27604782 TGACTACAAGTGTGGTACTATGTGCAGGCCAC
1 TGACTACAAGTGTGGTACTATGTGAAGGCCAC
27604814 CAGGTATCCG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.03
49 32 0.46
51 5 0.07
52 29 0.41
53 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTT
Found at i:27606679 original size:46 final size:46
Alignment explanation
Indices: 27606629--27606801 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
27606619 TTGAGCATCC
*
27606629 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * *
27606675 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-AAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* * * *
27606722 GAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
27606768 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27606802 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:27606782 original size:93 final size:93
Alignment explanation
Indices: 27606623--27606794 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27606613 GGATGGTTGA
* * *
27606623 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27606688 TGAGTCCGAGTTCGTGAGATGAAACTAG
66 TGAGTCCGAGTTCGTGAGATGAAACTAG
* * * *
27606716 GCATCTGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27606781 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27606795 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGAAACTAG
Found at i:27614246 original size:46 final size:46
Alignment explanation
Indices: 27614196--27614371 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
27614186 TGGTTGAGCA
27614196 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27614242 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27614287 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
27614335 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27614372 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27614352 original size:93 final size:93
Alignment explanation
Indices: 27614193--27614362 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
27614183 GGATGGTTGA
* *
27614193 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27614258 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
27614286 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27614351 TGAGTCCGAGTT
66 TGAGTCCGAGTT
27614363 TGCTTATGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27619346 original size:46 final size:46
Alignment explanation
Indices: 27619175--27619392 Score: 230
Period size: 46 Copynumber: 4.7 Consensus size: 46
27619165 TGTAACCCGC
* * * *
27619175 CCATAAGCGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
*
27619220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGC-A--T
* * * * *
27619266 ACATCTCA-CGAACTCGGACTCAACTCAACAAGTTCAGGCATTCGTAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
* * *
27619313 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
*
27619359 CCATAAGTGAACTCGAACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
27619393 GGATGCTCAA
Statistics
Matches: 145, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 35 0.24
46 70 0.48
47 28 0.19
48 4 0.03
49 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCAT
Found at i:27619381 original size:92 final size:94
Alignment explanation
Indices: 27619175--27619392 Score: 261
Period size: 92 Copynumber: 2.4 Consensus size: 94
27619165 TGTAACCCGC
* * * *
27619175 CCATAAGCGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAGTGAACTCGAACT
*
27619239 CAACTCAACGAGTTCGGATGCCTAGTTACAT
66 CAACTCAACGAGTTC-GATGAC-AGTTACAT
* * *
27619270 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCAGGCATTCGTATCCATAAGTGAACTCGAACT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAGTGAACTCGAACT
*
27619332 CAACTCAACGAGTTC-A-GAC-GTTCGCAT
66 CAACTCAACGAGTTCGATGACAGTT-ACAT
* *
27619359 CCATAAGTGAACTCGAACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
27619393 GGATGCTCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
88 3 0.03
89 3 0.03
90 3 0.03
91 3 0.03
92 48 0.46
93 44 0.42
94 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (94 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGCATCCATAAGTGAACTCGAACT
CAACTCAACGAGTTCGATGACAGTTACAT
Found at i:27625226 original size:46 final size:46
Alignment explanation
Indices: 27625159--27625379 Score: 211
Period size: 46 Copynumber: 4.8 Consensus size: 46
27625149 TGTAACCCGC
* * * *
27625159 CCATAAGCGAACTCGGACTCAACTCAAGGAGCTCAGGGGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGGATTCACAT
* **
27625205 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGTATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TT-CA-G-GGA-TTCACAT
* * * *
27625255 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTC-GGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGG-ATTCACAT
* *
27625298 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-GATTCACAT
*
27625344 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
27625380 ATGCTCAAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 1 0.01
45 2 0.01
46 99 0.69
47 24 0.17
48 3 0.02
49 2 0.01
50 4 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGGATTCACAT
Found at i:27629769 original size:18 final size:16
Alignment explanation
Indices: 27629746--27629819 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 16
27629736 GAAGTCTAAG
27629746 AAAATAACAATAAACATA
1 AAAATAA-AATAAA-ATA
27629764 AAAATAGAAATAAAACTA
1 AAAATA-AAATAAAA-TA
*
27629782 GAATATAAAAATAAAAAATA
1 -AAAAT-AAAAT--AAAATA
27629802 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
27629818 AA
1 AA
27629820 TGGGCTCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 8 0.17
17 1 0.02
18 19 0.40
19 13 0.27
20 3 0.06
21 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:27629774 original size:6 final size:5
Alignment explanation
Indices: 27629746--27629819 Score: 53
Period size: 6 Copynumber: 13.6 Consensus size: 5
27629736 GAAGTCTAAG
*
27629746 AAAAT AACAAT AAACAT AAAAAT AGAAAT AAAACT AGAATAT AAAA- ATAA-
1 AAAAT AA-AAT AAA-AT -AAAAT A-AAAT AAAA-T A-AA-AT AAAAT AAAAT
27629796 AAAAT AAAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAA
27629820 TGGGCTCAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
4 6 0.10
5 21 0.36
6 23 0.40
7 7 0.12
8 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:27629786 original size:11 final size:12
Alignment explanation
Indices: 27629747--27629815 Score: 70
Period size: 12 Copynumber: 5.7 Consensus size: 12
27629737 AAGTCTAAGA
*
27629747 AAATAACAATA-
1 AAATAAAAATAG
27629758 AACATAAAAATAG
1 AA-ATAAAAATAG
*
27629771 AAATAAAACTAG
1 AAATAAAAATAG
*
27629783 AATATAAAAATAAA
1 AA-ATAAAAAT-AG
27629797 AAATAAAAATA-
1 AAATAAAAATAG
27629808 AAATAAAA
1 AAATAAAA
27629816 TAAATGGGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
11 10 0.20
12 20 0.40
13 17 0.34
14 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.17
Consensus pattern (12 bp):
AAATAAAAATAG
Found at i:27629812 original size:37 final size:37
Alignment explanation
Indices: 27629744--27629815 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
27629734 AAGAAGTCTA
* *
27629744 AGAAAATAACAATAAACATAAAAATAGAAATAAAACT
1 AGAAAATAAAAATAAAAATAAAAATAGAAATAAAACT
*
27629781 AGAATATAAAAATAAAAAATAAAAATA-AAATAAAA
1 AGAAAATAAAAAT-AAAAATAAAAATAGAAATAAAA
27629816 TAAATGGGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (37 bp):
AGAAAATAAAAATAAAAATAAAAATAGAAATAAAACT
Found at i:27630885 original size:23 final size:24
Alignment explanation
Indices: 27630801--27630920 Score: 84
Period size: 23 Copynumber: 5.0 Consensus size: 24
27630791 TTCTAGCTAT
**
27630801 GAACAGTAAGCTCTTCCTGAGCTGA
1 GAACAGTAAGCTCTAAC-GAGCTGA
* **
27630826 TAGACAGTAAGCTCTATTGAGCT-A
1 GA-ACAGTAAGCTCTAACGAGCTGA
* * * **
27630850 AAATATTTTGCTCTAACGAGCTGA
1 GAACAGTAAGCTCTAACGAGCTGA
*
27630874 -AACAGTAAGCTC-ATATGAGCTGA
1 GAACAGTAAGCTCTA-ACGAGCTGA
*
27630897 GAACAGTAAGCTCTTACGAGCTGA
1 GAACAGTAAGCTCTAACGAGCTGA
27630921 TATATCGGTA
Statistics
Matches: 72, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
22 1 0.01
23 30 0.42
24 23 0.32
25 6 0.08
26 12 0.17
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (24 bp):
GAACAGTAAGCTCTAACGAGCTGA
Found at i:27630906 original size:24 final size:23
Alignment explanation
Indices: 27630865--27630945 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 23
27630855 TTTTGCTCTA
27630865 ACGAGCTGAAACAGTAAGCTCAT
1 ACGAGCTGAAACAGTAAGCTCAT
* *
27630888 ATGAGCTGAGAACAGTAAGCTCTT
1 ACGAGCTGA-AACAGTAAGCTCAT
* *
27630912 ACGAGCTGATATATCGGTAAACTCAT
1 ACGAGCTGA-A-A-CAGTAAGCTCAT
27630938 ACGAGCTG
1 ACGAGCTG
27630946 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 8 0.17
24 22 0.46
25 1 0.02
26 17 0.35
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (23 bp):
ACGAGCTGAAACAGTAAGCTCAT
Found at i:27636492 original size:28 final size:28
Alignment explanation
Indices: 27636452--27636605 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
27636442 TAAATTGTAC
27636452 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27636480 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
27636508 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27636536 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27636564 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
27636591 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27636606 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:27640815 original size:66 final size:65
Alignment explanation
Indices: 27640706--27640831 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 65
27640696 GACTTGCATC
*
27640706 ACACGGCCAAAAACACGCCCGTGTGCCAGTCCGTGTAAAAATT-AGAGAGTATACTGACTTATGC
1 ACACGGCCAAAAACACGCCCGTGTGCCAGGCCGTGTAAAAATTAAG-GAGTATACTGACTTATGC
27640770 A
65 A
* * * *** *
27640771 ACACGGCCAAATCACACGCCCGTGTGCTAGGCTGTGTGCCAATTAAGGGGTATACTGACTT
1 ACACGGCCAAA-AACACGCCCGTGTGCCAGGCCGTGTAAAAATTAAGGAGTATACTGACTT
27640832 GTACCATACA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
65 11 0.22
66 38 0.75
67 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (65 bp):
ACACGGCCAAAAACACGCCCGTGTGCCAGGCCGTGTAAAAATTAAGGAGTATACTGACTTATGCA
Found at i:27641911 original size:25 final size:24
Alignment explanation
Indices: 27641852--27641928 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 24
27641842 TGATTTTTTT
*
27641852 CTCTTTTGAGCTATGAACAGTAAG
1 CTCTATTGAGCTATGAACAGTAAG
** *
27641876 CTCCTCCTGAGCTGATGGACAGTAAG
1 CT-CTATTGAGCT-ATGAACAGTAAG
* *
27641902 CTCTATTGAGCTA-AAATAGTAAG
1 CTCTATTGAGCTATGAACAGTAAG
27641925 CTCT
1 CTCT
27641929 GACGAGCTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.26
24 3 0.07
25 16 0.37
26 13 0.30
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
CTCTATTGAGCTATGAACAGTAAG
Found at i:27641998 original size:26 final size:23
Alignment explanation
Indices: 27641894--27642009 Score: 110
Period size: 23 Copynumber: 4.9 Consensus size: 23
27641884 GAGCTGATGG
*
27641894 ACAGTAAGCTC-TATTGAGCTAAA
1 ACAGTAAGCTCATA-CGAGCTAAA
* *
27641917 ATAGTAAGCTC-TGACGAGCTGAA
1 ACAGTAAGCTCAT-ACGAGCTAAA
* *
27641940 ACAATAAGCTCATACGAGCTCAGA
1 ACAGTAAGCTCATACGAGCT-AAA
*
27641964 ACAGTAAGCTCTTACGAGCTAATA
1 ACAGTAAGCTCATACGAGCTAA-A
27641988 TATCAGTAAGCTCATACGAGCT
1 -A-CAGTAAGCTCATACGAGCT
27642010 GTGGTGAGTC
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
23 35 0.46
24 22 0.29
25 1 0.01
26 18 0.24
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCATACGAGCTAAA
Found at i:27647587 original size:18 final size:18
Alignment explanation
Indices: 27647564--27647609 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
27647554 TTTTTTATTC
27647564 TCTTTTTCAATCTCATTT
1 TCTTTTTCAATCTCATTT
* * *
27647582 TCTTTTTCATTTTCTTTT
1 TCTTTTTCAATCTCATTT
*
27647600 TGTTTTTCAA
1 TCTTTTTCAA
27647610 AGGCTTTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.67
Consensus pattern (18 bp):
TCTTTTTCAATCTCATTT
Done.