Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 186 of 438
Found at i:57468388 original size:48 final size:48
Alignment explanation
Indices: 57468307--57468441 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
57468297 TGAACATGCA
* * * *
57468307 TATATGTGATAAGGCCGAATGGCCAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
57468355 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
57468403 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
57468442 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:57468696 original size:37 final size:37
Alignment explanation
Indices: 57468588--57468696 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
57468578 GGAAATATAT
*
57468588 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
57468625 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
57468662 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
57468697 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:57470029 original size:40 final size:40
Alignment explanation
Indices: 57469974--57470435 Score: 700
Period size: 40 Copynumber: 11.6 Consensus size: 40
57469964 GTTATATATA
* *
57469974 TATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57470014 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* **
57470054 TATCCGTGCTAAACCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57470094 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57470134 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57470174 TATCCGGGCTAAGTCCCGAAGAGCATT-GTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57470213 TAAT-CGGGCTAA-TCCC-AAGAGCATTCGTGCTAGTGATG
1 T-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57470251 TATCCGGGCTAAGT-CCGAAGAGCATTCGAGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57470290 TATCCGGGTTAAGTCCCGAAGAGCATTTGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * *
57470330 TATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* ** * * *
57470370 TATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57470410 TATCCGGGCTAGGTCCCGAAAGAGCA
1 TATCCGGGCTAAGTCCCG-AAGAGCA
57470436 ATCATGCTGG
Statistics
Matches: 385, Mismatches: 30, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
37 11 0.03
38 27 0.07
39 56 0.15
40 284 0.74
41 7 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:57470416 original size:236 final size:238
Alignment explanation
Indices: 57469992--57470435 Score: 721
Period size: 236 Copynumber: 1.9 Consensus size: 238
57469982 CTAAGTCCTG
*
57469992 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTAT
* *
57470057 CCGTGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
66 CCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAAAGCATTC
* ** *
57470122 GTGCTAGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG
131 GTGCTAGTGATATAACCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAG
57470187 TCCCG-AAGAGCATTGTGCTAGTGATGTAATCGGGCTAATCCC
196 TCCCGAAAGAGCATTGTGCTAGTGATGTAATCGGGCTAATCCC
57470229 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGAGCTAGTGATGTAT
1 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTAT
* ** * *
57470293 CCGGGTTAAGTCCCGAAGAGCATTTGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAAAGCATTC
66 CCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAAAGCATTC
* * * * *
57470358 GTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGG
131 GTGCTAGTGATATAACCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAG
57470423 TCCCGAAAGAGCA
196 TCCCGAAAGAGCA
57470436 ATCATGCTGG
Statistics
Matches: 189, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
236 146 0.77
237 43 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (238 bp):
AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTAT
CCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAAAGCATTC
GTGCTAGTGATATAACCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAG
TCCCGAAAGAGCATTGTGCTAGTGATGTAATCGGGCTAATCCC
Found at i:57470661 original size:25 final size:25
Alignment explanation
Indices: 57470611--57470661 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
57470601 TGTGTGACAA
* *
57470611 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
57470636 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
57470661 C
1 C
57470662 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:57474052 original size:22 final size:22
Alignment explanation
Indices: 57474024--57474099 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
57474014 ACATGCATAT
57474024 ATGTGATAACGCCGAATGGCCA
1 ATGTGATAACGCCGAATGGCCA
* *
57474046 ATGTGATGAATG-TGAGCAT-G-CA
1 ATGTGAT-AACGCCGA--ATGGCCA
57474068 TATGTGTGATAACGCCGAATGGCCA
1 -A--TGTGATAACGCCGAATGGCCA
57474093 ATGTGAT
1 ATGTGAT
57474100 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAACGCCGAATGGCCA
Found at i:57474053 original size:47 final size:47
Alignment explanation
Indices: 57473999--57474333 Score: 537
Period size: 47 Copynumber: 7.1 Consensus size: 47
57473989 TTAGGATTTT
* * *
57473999 ATGTGATGAATGTGAACATGCATATATGTGATAACGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
*
57474046 ATGTGATGAATGTGAGCATGCATATGTGTGATAACGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
*
57474093 ATGTGATGAATGTGAGCATGCATATGTGTGACAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
57474140 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
57474187 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
*
57474234 ATGTGATGAATGTGAGCATGCATATGTGTAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
57474281 A-GATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATG-TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
57474328 ATGTGA
1 ATGTGA
57474334 AATATGTATG
Statistics
Matches: 268, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 266 0.99
48 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:57474644 original size:37 final size:37
Alignment explanation
Indices: 57474540--57474644 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
57474530 ATATATTCCA
* *
57474540 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCTG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
**
57474577 GGTAAGACCAAATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
57474614 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
57474645 CGTCTGAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:57492445 original size:46 final size:46
Alignment explanation
Indices: 57492392--57492564 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
57492382 TGGTTGAGCA
*
57492392 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
57492438 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
57492485 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
57492531 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57492565 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:57492548 original size:93 final size:93
Alignment explanation
Indices: 57492389--57492559 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
57492379 GGATGGTTGA
* * * *
57492389 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
57492454 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
57492482 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
57492547 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57492560 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57492817 original size:19 final size:20
Alignment explanation
Indices: 57492789--57492826 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57492779 ATAAGGTGGT
57492789 AAGATGATGA-ATGATGTTTA
1 AAGATGATGATAT-ATGTTTA
57492809 AAGAT-ATGATATATGTTT
1 AAGATGATGATATATGTTT
57492827 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGATATATGTTTA
Found at i:57497140 original size:40 final size:40
Alignment explanation
Indices: 57497095--57497290 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
57497085 TTAGCAACTC
*
57497095 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAATA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
* *
57497135 GCACAAAAGCCTTCGAGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCG-GGACTTAGCCCGGATATAGTCAATA
* *
57497176 GCACAAATGCCTTCGGGACTTAGCTCGAATATAGTCAATA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
57497216 GCACAAATGCCTATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
1 GCAC-AA-----ATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
57497262 GCACAAATGCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA
57497291 CATCATTCGA
Statistics
Matches: 140, Mismatches: 9, Indels: 14
0.86 0.06 0.09
Matches are distributed among these distances:
40 63 0.45
41 39 0.28
45 2 0.01
46 36 0.26
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATA
Found at i:57497273 original size:86 final size:81
Alignment explanation
Indices: 57497095--57497288 Score: 291
Period size: 86 Copynumber: 2.3 Consensus size: 81
57497085 TTAGCAACTC
* *
57497095 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAGCCTTCGAGGACTTAGC
1 GCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCAATAGCACAAAAGCCTTCGAGGACTTAGC
*
57497160 CCGGATATAGTCACTA
66 CCGGATATAGTCAATA
*
57497176 GCACAAATGCCTTCGGGACTTAGCTCGAATATAGTCAATAGCACAAATGCCTATGCCTTCG-GGA
1 GCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCAATAGCACAAA-----A-GCCTTCGAGGA
57497240 CTTAGCCCGGATATAGTCAATA
60 CTTAGCCCGGATATAGTCAATA
57497262 GCACAAATGCCTTCGGGACTTAGCCCG
1 GCACAAATGCCTTCGGGACTTAGCCCG
57497289 GACATCATTC
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
81 44 0.43
86 51 0.50
87 7 0.07
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCAATAGCACAAAAGCCTTCGAGGACTTAGC
CCGGATATAGTCAATA
Found at i:57497314 original size:21 final size:23
Alignment explanation
Indices: 57497290--57497342 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
57497280 CTTAGCCCGG
57497290 ACATCAT-TCGAAT-AATCATG-C
1 ACATCATATC-AATAAATCATGAC
57497311 ACAT-ATATCAATAAATCATGAC
1 ACATCATATCAATAAATCATGAC
57497333 ACATCCATAT
1 ACAT-CATAT
57497343 TTTATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 5 0.19
24 4 0.15
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (23 bp):
ACATCATATCAATAAATCATGAC
Found at i:57499896 original size:41 final size:41
Alignment explanation
Indices: 57499839--57500020 Score: 203
Period size: 41 Copynumber: 4.5 Consensus size: 41
57499829 GCTTGGGTTT
*
57499839 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTAC
1 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTAC
* * *
57499880 GAAGGGCTTTTGAGCCAGTGCTAATATCCAAACTTAGTTTC
1 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTAC
* * *
57499921 GAAGGGCTTTTGAGCCAGTG-TCATAACCGGACTTAGTTCC
1 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTAC
* * * *
57499961 GAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGTCT-C
1 GAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGT-TAC
57500002 GAAGGGC-TTTGAGCCAGTG
1 GAAGGGCTTTTGAGCCAGTG
57500021 TTAAGAATCG
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 42 0.35
41 74 0.61
42 1 0.01
43 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTAC
Found at i:57499976 original size:81 final size:81
Alignment explanation
Indices: 57499835--57500021 Score: 229
Period size: 81 Copynumber: 2.3 Consensus size: 81
57499825 TCGAGCTTGG
* *
57499835 GTTT-GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGCTTTTGAGCCAGT
1 GTTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCGAACTTAATTACGAAGGGCCTTCGAGCCAGT
57499899 -G-CTAATATCCAAACTTA
65 GGCCT-A-ATCCAAACTTA
* * * *
57499916 GTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTG
1 GTTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGGCCTTCGAGCCAGTG
* * *
57499981 GCCTAATCCGAGCTTG
66 GCCTAATCCAAACTTA
*
57499997 GTCTCGAAGGGC-TTTGAGCCAGTGT
1 GTTTCGAAGGGCTTTTGAGCCAGTGT
57500022 TAAGAATCGT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
80 13 0.14
81 56 0.60
82 22 0.24
83 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (81 bp):
GTTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGGCCTTCGAGCCAGTG
GCCTAATCCAAACTTA
Found at i:57500042 original size:81 final size:78
Alignment explanation
Indices: 57499826--57500047 Score: 207
Period size: 81 Copynumber: 2.7 Consensus size: 78
57499816 GGTGTAAATT
* * * * *
57499826 CGAGCTTGGGTTTGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGCTTTT
1 CGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCG-GCTT-ATTCCGAAGGGCCTTC
57499891 GAGCCAGTGCTAATATC
62 GAGCCAGTGCTAATATC
* * * *
57499908 CAAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCG
1 CGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGG-CTTA-TTCCGAAGGGCCTTCG
57499973 AGCCAGTGGCCT-A-ATC
63 AGCCAGT-G-CTAATATC
* *
57499989 CGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTGCTTGATTCCGAAGGG
1 CGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAACCG-GCTT-ATTCCGAAGGG
57500048 TGGTTGTGCC
Statistics
Matches: 116, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
80 15 0.13
81 67 0.58
82 32 0.28
83 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
CGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGGCTTATTCCGAAGGGCCTTCGAGC
CAGTGCTAATATC
Found at i:57506832 original size:41 final size:41
Alignment explanation
Indices: 57506775--57506957 Score: 223
Period size: 41 Copynumber: 4.5 Consensus size: 41
57506765 AGCTTGGGTT
*
57506775 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTA
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* *
57506816 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* *
57506857 CGAAGGGCTTTTGAGCCAGTG-TCATAACCGAACTTAGTTC
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* * * *
57506897 CGAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGTCT-
1 CGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGT-TA
57506938 CGAAGGGC-TTTGAGCCAGTG
1 CGAAGGGCTTTTGAGCCAGTG
57506958 TTAAGAATCG
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 44 0.35
41 77 0.61
42 1 0.01
43 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
Found at i:57506913 original size:81 final size:81
Alignment explanation
Indices: 57506759--57506958 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
57506749 TCGGGGTGTA
* * *
57506759 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAATTACGAAGGGC
1 AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCGAACTTAATTACGAAGGGC
* *
57506824 TTTTGAGCCAGT-G-CT
65 CTTCGAGCCAGTGGCCT
* * * *
57506839 AATAACTGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACTTAGTTCCGAAGGG
1 AAT--CCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGG
57506904 CCTTCGAGCCAGTGGCCT
64 CCTTCGAGCCAGTGGCCT
* * *
57506922 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGT
1 AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGT
57506959 TAAGAATCGT
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
80 16 0.16
81 51 0.50
82 31 0.30
83 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTACGAAGGGCC
TTCGAGCCAGTGGCCT
Found at i:57510728 original size:46 final size:46
Alignment explanation
Indices: 57510573--57510796 Score: 219
Period size: 46 Copynumber: 4.9 Consensus size: 46
57510563 CACTGCTGTT
* * *
57510573 ATGTGAGCCCGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATT
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-G
* * * *
57510619 ATGAAAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAG
1 ATGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG
*
57510667 A--CAAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
1 ATGTAA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
* *
57510713 ATGTAAGCCAATGTAAGACATGTCTGGGACATGCATC-GACTACGAG
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAG
* * *
57510759 ATGT--GCTAGTGTAAGACATGTCTAGGCCATGCATCGGC
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
57510797 ACGAATGTGT
Statistics
Matches: 150, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
44 27 0.18
45 4 0.03
46 68 0.45
47 27 0.18
48 23 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
Found at i:57511895 original size:27 final size:26
Alignment explanation
Indices: 57511859--57512015 Score: 118
Period size: 27 Copynumber: 5.8 Consensus size: 26
57511849 ATACCCCCAG
57511859 TTGTAAAATTACCAAAGTACCCTCGGT
1 TTGTAAAATTACCAAA-TACCCTCGGT
* * * *
57511886 TTATAAAATTATCGAAATACCGTC-GA
1 TTGTAAAATTA-CCAAATACCCTCGGT
* * *
57511912 TTGTAAAATTACTGAAATACCCTTGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* *
57511939 TTGTAAAATTACAGAAATACCCTCAGT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* * *
57511966 TTGCAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* * *
57511993 TTTTATAATTACTGAAATACCCT
1 TTGTAAAATTAC-CAAATACCCT
57512016 TGTAGGGTAG
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
25 1 0.01
26 20 0.19
27 80 0.76
28 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGGT
Found at i:57511987 original size:54 final size:53
Alignment explanation
Indices: 57511831--57512015 Score: 203
Period size: 53 Copynumber: 3.5 Consensus size: 53
57511821 AATACTTTAG
* * * * *
57511831 TTTACTAAAATTATTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCTCGG
1 TTTA-TAAAATTACTGAAATACCCTCAGTTGTAAAATTACTAAAATACCCTCGA
* * *
57511885 TTTATAAAATTA-TCGAAATACCGTC-GATTGTAAAATTACTGAAATACCCTTGA
1 TTTATAAAATTACT-GAAATACCCTCAG-TTGTAAAATTACTAAAATACCCTCGA
* * *
57511938 TTTGTAAAATTACAGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGA
1 TTTATAAAATTACTGAAATACCCTCAG-TTGTAAAATTACTAAAATACCCTCGA
* *
57511992 TTTTTATAATTACTGAAATACCCT
1 TTTATAAAATTACTGAAATACCCT
57512016 TGTAGGGTAG
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 59 0.54
54 49 0.45
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (53 bp):
TTTATAAAATTACTGAAATACCCTCAGTTGTAAAATTACTAAAATACCCTCGA
Found at i:57512029 original size:27 final size:27
Alignment explanation
Indices: 57511999--57512247 Score: 284
Period size: 27 Copynumber: 9.2 Consensus size: 27
57511989 CGATTTTTAT
*
57511999 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
57512026 AATTACTAAAATACCACTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
57512053 AATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * *
57512080 AATTACCAAAATACCCTTGTGGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57512107 AAATA-TCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57512134 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57512161 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57512188 AATTACTGAAATACCCCTGTGGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
57512215 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57512242 AATTAC
1 AATTAC
57512248 CATTTTGCCC
Statistics
Matches: 188, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 187 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57512038 original size:81 final size:79
Alignment explanation
Indices: 57511861--57512040 Score: 193
Period size: 80 Copynumber: 2.2 Consensus size: 79
57511851 ACCCCCAGTT
* * * * *
57511861 GTAAAATTACCAAAGTACCCTCGGTTTATAAAATTATCGAAATACCGTCGATTGTAAAATTACTG
1 GTAAAATTA-CAAAATACCCTCAGTTTACAAAATTATCAAAATACCCTCGATTGTAAAATTACTG
**
57511926 AAATACCCTTGATTT
65 AAATACCCTTGATGG
* * *
57511941 GTAAAATTACAGAAATACCCTCAGTTTGCAAAATTA-CTAAAATACCCTCGATTTTTATAATTAC
1 GTAAAATTACA-AAATACCCTCAGTTTACAAAATTATC-AAAATACCCTCGA-TTGTAAAATTAC
57512005 TGAAATACCCTTG-TAGG
63 TGAAATACCCTTGAT-GG
*
57512022 GTAGAATTACTAAAATACC
1 GTAAAATTAC-AAAATACC
57512041 ACTATAGGGT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
79 3 0.04
80 41 0.49
81 39 0.46
82 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (79 bp):
GTAAAATTACAAAATACCCTCAGTTTACAAAATTATCAAAATACCCTCGATTGTAAAATTACTGA
AATACCCTTGATGG
Found at i:57512055 original size:81 final size:81
Alignment explanation
Indices: 57511970--57512231 Score: 278
Period size: 81 Copynumber: 3.2 Consensus size: 81
57511960 CTCAGTTTGC
*** * * *
57511970 AAAATTACTAAAATACCCTCG-ATTTTTATAATTACTGAAATACCCTTGTAGGGTAGAATTACTA
1 AAAATTACTAAAATACCCTCGTA-AGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
*
57512034 AAATACCACTATAGGGT
65 AAATACCCCTATAGGGT
** * * * * * *
57512051 AAAATTACCGAAATACCTTTGTAGGGTAGAATTACCAAAATACCCTTGTGGGGTAGAAATA-TCG
1 AAAATTACTAAAATACCCTCGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACT-G
57512115 AAATACCCCTATAGGGT
65 AAATACCCCTATAGGGT
* *
57512132 AGAATTACTAAAATACCC-CTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
1 AAAATTACTAAAATACCCTC-GTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
* *
57512196 AAATACCCCTGTGGGGT
65 AAATACCCCTATAGGGT
* * *
57512213 AGAATTACTGAGATACCCT
1 AAAATTACTAAAATACCCT
57512232 TGTGGGGTAA
Statistics
Matches: 148, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 145 0.98
82 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGA
AATACCCCTATAGGGT
Found at i:57512246 original size:81 final size:81
Alignment explanation
Indices: 57511999--57512248 Score: 322
Period size: 81 Copynumber: 3.1 Consensus size: 81
57511989 CGATTTTTAT
* * * * *
57511999 AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCACTATAGGGTAAAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAAA
*
57512064 TACCTTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * * *
57512080 AATTACCAAAATACCCTTGTGGGGTAGAAATA-TCGAAATACCCCTATAGGGTAGAATTACTAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACT-GAAATACCCCTATAGGGTAGAATTACTGAA
* *
57512144 ATACCCCTGTAAGGTAG
65 ATACCCTTGTAGGGTAG
* * * *
57512161 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTGGGGTAGAATTACTGAGA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAAA
* *
57512226 TACCCTTGTGGGGTAA
66 TACCCTTGTAGGGTAG
57512242 AATTACC
1 AATTACC
57512249 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 141 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAAA
TACCCTTGTAGGGTAG
Found at i:57512515 original size:27 final size:26
Alignment explanation
Indices: 57512476--57512554 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
57512466 GGAAGCGTTC
57512476 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCAC-AATATCTGTTT
* *
57512503 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TT
* * * *
57512530 TGGTGACTTTGTCACAACATCTGTT
1 TGGTGGCTATGCCACAATATCTGTT
57512555 GACCGATCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.22
27 35 0.78
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTT
Found at i:57512762 original size:98 final size:98
Alignment explanation
Indices: 57512605--57512842 Score: 298
Period size: 98 Copynumber: 2.4 Consensus size: 98
57512595 TGTGTGCCGT
* * * * *
57512605 TATTGTAGGCTTGGTGCCGACTATAGACCCTTTATCAATGGCTGAATGCCGATAGTGTTATCGAA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCCGAATGCCGATAGTGTTACCGAA
* *
57512670 GGCTGTGCACCATTATTGTAGGCTTCGTATTGA
66 GGCTGTGCACCATTATTGTAGGCTGCGTATCGA
*
57512703 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCCGAGTGCCGATCA-TGTTACCGA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCCGAATGCCGAT-AGTGTTACCGA
* ** * *
57512767 AGTCTGTGTGCCGTTATTGTGGGCTGCGTATCGA
65 AGGCTGTGCACCATTATTGTAGGCTGCGTATCGA
* * * * *
57512801 TATTGTGGGCTTCGTGCCAATTATGGACCTGTTATCGATGGC
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGC
57512843 TTTGTGCCAC
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
98 120 0.99
99 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (98 bp):
TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCCGAATGCCGATAGTGTTACCGAA
GGCTGTGCACCATTATTGTAGGCTGCGTATCGA
Found at i:57516175 original size:26 final size:27
Alignment explanation
Indices: 57516146--57516202 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
57516136 TACACATCGT
57516146 AGGGCAAAT-CAATCATTTTACCTTAC
1 AGGGCAAATACAATCATTTTACCTTAC
** * *
57516172 AGGGGTATTACAGTCATTTTACCTTAC
1 AGGGCAAATACAATCATTTTACCTTAC
57516199 AGGG
1 AGGG
57516203 ATATTTCGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
AGGGCAAATACAATCATTTTACCTTAC
Found at i:57516188 original size:27 final size:27
Alignment explanation
Indices: 57516158--57516273 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
57516148 GGCAAATCAA
* *
57516158 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTTCAG
* * *
57516185 TCATTTTACCTTACAGGGATATTTCGG
1 TCATTTTACCCTACAGGGGTATTTCAG
* * *
57516212 TCATTCTACCCTACGGGGGTATTTTAG
1 TCATTTTACCCTACAGGGGTATTTCAG
* *
57516239 TCATCTTACCCTA-TGAGGGTATTTCAG
1 TCATTTTACCCTACAG-GGGTATTTCAG
57516266 TCATTTTA
1 TCATTTTA
57516274 TCACATAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 73 0.99
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTCAG
Found at i:57516295 original size:27 final size:27
Alignment explanation
Indices: 57516265--57516392 Score: 202
Period size: 27 Copynumber: 4.7 Consensus size: 27
57516255 GGGTATTTCA
*
57516265 GTCATTTTATCACATAAGAGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
57516292 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
** *
57516319 GTCATTTTATCACATGCGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
57516346 TTCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
57516373 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
57516393 TTCAGGTACG
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:57521759 original size:37 final size:36
Alignment explanation
Indices: 57521695--57521765 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
57521685 ATTCCAAAAA
57521695 TAATATTATTTTAATAGATTTAATATTAAATTAAATC
1 TAATATTATTTTAATAGATTT-ATATTAAATTAAATC
*
57521732 TAATAGTTATTTTAATAGTATTT-TATTAATTTAA
1 TAATA-TTATTTTAATAG-ATTTATATTAAATTAA
57521766 TATGAAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 15 0.48
38 12 0.39
39 4 0.13
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATTTTAATAGATTTATATTAAATTAAATC
Found at i:57521779 original size:20 final size:19
Alignment explanation
Indices: 57521756--57521824 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
57521746 ATAGTATTTT
*
57521756 ATTAATTTAATATGAAAGTG
1 ATTAATTTAATAT-AAAATG
*
57521776 ATT-ATCTTAATATTAAAT-
1 ATTAAT-TTAATATAAAATG
*
57521794 -CTAATTTAATATAAAATTG
1 ATTAATTTAATATAAAA-TG
57521813 ATTAAGTTTAAT
1 ATTAA-TTTAAT
57521825 CATAGTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
17 11 0.29
18 3 0.08
19 5 0.13
20 13 0.34
21 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (19 bp):
ATTAATTTAATATAAAATG
Found at i:57525192 original size:30 final size:30
Alignment explanation
Indices: 57525158--57525214 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
57525148 TAACTCAAAC
57525158 TTTTGAAAAATTACAATTTTGCCCCTAAAA
1 TTTTGAAAAATTACAATTTTGCCCCTAAAA
* * * *
57525188 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
57525215 GGCTCGGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAA
Found at i:57528260 original size:15 final size:16
Alignment explanation
Indices: 57528242--57528275 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
57528232 TGTGTGGTTT
57528242 ACTCA-TGTGGGGCCC
1 ACTCACTGTGGGGCCC
57528257 ACTCACCTGTGGGGCCC
1 ACTCA-CTGTGGGGCCC
57528274 AC
1 AC
57528276 ACAATCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
17 12 0.71
ACGTcount: A:0.15, C:0.38, G:0.29, T:0.18
Consensus pattern (16 bp):
ACTCACTGTGGGGCCC
Found at i:57534553 original size:40 final size:40
Alignment explanation
Indices: 57534498--57534707 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57534488 AACATTGGAA
57534498 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57534538 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57534578 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
57534618 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
57534657 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
57534698 CTATATCCGG
1 ATATATCCGG
57534708 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:57542687 original size:40 final size:40
Alignment explanation
Indices: 57542632--57542841 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57542622 GAACATTGAA
57542632 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57542672 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57542712 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
57542752 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
57542791 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
57542832 CTATATCCGG
1 ATATATCCGG
57542842 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:57547140 original size:24 final size:24
Alignment explanation
Indices: 57547113--57547210 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
57547103 AAGGCTGTCA
57547113 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
57547137 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
57547161 GGAGAGGATTTAGGAGTTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
57547185 GGAGAAGATTTAAGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
57547210 G
1 G
57547211 AGCAAGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 63 0.95
25 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:57547993 original size:27 final size:27
Alignment explanation
Indices: 57547953--57548056 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
57547943 AGGAAGCGTC
* * * *
57547953 CTAGTGGCTATGCCACATTTCTTTGAT
1 CTAGTGGCTCTGCCACATATATCTGAT
*
57547980 CTAGTGGCTCTGCCACATATATCTGTT
1 CTAGTGGCTCTGCCACATATATCTGAT
* *
57548007 CTGGTGGCTCTGCCACA-ATTATCTGCT
1 CTAGTGGCTCTGCCACATA-TATCTGAT
* * *
57548034 CTGGTGACTCTGTCACAT-TATCT
1 CTAGTGGCTCTGCCACATATATCT
57548057 ATTCTGGCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 6 0.09
27 60 0.91
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (27 bp):
CTAGTGGCTCTGCCACATATATCTGAT
Found at i:57548062 original size:26 final size:26
Alignment explanation
Indices: 57547987--57548063 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
57547977 GATCTAGTGG
*
57547987 CTCTGCCACATATATCTGTTCTGGTGG
1 CTCTGCCACAT-TATCTGTTCTGGTGA
*
57548014 CTCTGCCACAATTATCTGCTCTGGTGA
1 CTCTGCCAC-ATTATCTGTTCTGGTGA
* *
57548041 CTCTGTCACATTATCTATTCTGG
1 CTCTGCCACATTATCTGTTCTGG
57548064 CAGCCATGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 12 0.27
27 30 0.68
28 2 0.05
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (26 bp):
CTCTGCCACATTATCTGTTCTGGTGA
Found at i:57551113 original size:24 final size:24
Alignment explanation
Indices: 57551068--57551113 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57551058 AGGACCGTAA
**
57551068 AGGAGTTCCAAGATGTTTTTCCAG
1 AGGAGTTCCAAGATGTGCTTCCAG
57551092 AGGAGCTTCCAAGAT-TGCTTCC
1 AGGAG-TTCCAAGATGTGCTTCC
57551114 GAACCGGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (24 bp):
AGGAGTTCCAAGATGTGCTTCCAG
Found at i:57553583 original size:30 final size:30
Alignment explanation
Indices: 57553549--57553608 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
57553539 ATTTAATACG
57553549 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
57553579 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
57553609 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:57560659 original size:93 final size:93
Alignment explanation
Indices: 57560500--57560670 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57560490 CGCCCTAAGT
* *
57560500 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57560565 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
57560593 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57560658 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57560671 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:57560667 original size:46 final size:46
Alignment explanation
Indices: 57560495--57560667 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
57560485 TAACCCGCCC
* * *
57560495 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
57560541 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
57560589 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57560634 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57560668 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57563053 original size:30 final size:30
Alignment explanation
Indices: 57563019--57563079 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
57563009 TTCCCGAGCC
57563019 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
57563049 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
57563079 T
1 T
57563080 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:57563862 original size:68 final size:66
Alignment explanation
Indices: 57563790--57563961 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
57563780 CATCATGTGT
* * * *
57563790 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
57563853 TGTAG
62 TGTAG
** * *
57563858 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
57563923 AG
65 AG
* * * *
57563925 ACAAGAGAGCTACGAGATA-ATTTGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
57563962 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 19 0.21
67 30 0.34
68 13 0.15
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:57563895 original size:64 final size:63
Alignment explanation
Indices: 57563814--57563997 Score: 201
Period size: 67 Copynumber: 2.9 Consensus size: 63
57563804 AGACATTATG
* *
57563814 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
57563877 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
57563942 TA
62 TA
* * * *
57563944 ATTTGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
57563998 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 23 0.23
67 31 0.31
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:57568050 original size:29 final size:29
Alignment explanation
Indices: 57568017--57568090 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57568007 GTGACGAGAT
57568017 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
57568046 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
57568075 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57568091 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:57568106 original size:29 final size:29
Alignment explanation
Indices: 57568074--57568149 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
57568064 CTGGAAATAT
* *
57568074 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
57568103 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
57568132 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
57568150 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:57568117 original size:58 final size:58
Alignment explanation
Indices: 57568017--57568149 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
57568007 GTGACGAGAT
* * * * * *
57568017 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
57568075 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
57568133 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
57568150 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:57575925 original size:29 final size:29
Alignment explanation
Indices: 57575892--57575965 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57575882 GTGACGAGAT
57575892 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
57575921 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
57575950 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57575966 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:57575981 original size:29 final size:29
Alignment explanation
Indices: 57575949--57576024 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
57575939 CTGGAAATAT
* *
57575949 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
57575978 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
57576007 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
57576025 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:57575992 original size:58 final size:58
Alignment explanation
Indices: 57575892--57576024 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
57575882 GTGACGAGAT
* * * * * *
57575892 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
57575950 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
57576008 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
57576025 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:57578516 original size:40 final size:40
Alignment explanation
Indices: 57578471--57578637 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57578461 CGGAATATAA
57578471 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57578511 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57578551 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57578591 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57578630 CCGGATAT
1 CCGGATAT
57578638 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57586499 original size:40 final size:40
Alignment explanation
Indices: 57586454--57586620 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57586444 CGGAATATAA
57586454 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57586494 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57586534 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57586574 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57586613 CCGGATAT
1 CCGGATAT
57586621 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57589943 original size:24 final size:24
Alignment explanation
Indices: 57589916--57589989 Score: 130
Period size: 24 Copynumber: 3.0 Consensus size: 24
57589906 AAGGCTGTCA
57589916 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
57589940 GGAGAAGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
57589964 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
57589989 G
1 G
57589990 AGCAAGAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 44 0.94
25 3 0.06
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:57589955 original size:12 final size:12
Alignment explanation
Indices: 57589915--57589979 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
57589905 AAAGGCTGTC
57589915 AGGAGAAGATTT
1 AGGAGAAGATTT
** *
57589927 AGGAGCTGA-TA
1 AGGAGAAGATTT
57589938 AGGGAGAAGATTT
1 A-GGAGAAGATTT
** **
57589951 AGGAGCTGATAA
1 AGGAGAAGATTT
57589963 AGGAGAAGATTT
1 AGGAGAAGATTT
57589975 AGGAG
1 AGGAG
57589980 CTGATCAAGG
Statistics
Matches: 37, Mismatches: 14, Indels: 4
0.67 0.25 0.07
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.20
Consensus pattern (12 bp):
AGGAGAAGATTT
Found at i:57591416 original size:27 final size:27
Alignment explanation
Indices: 57591378--57591478 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
57591368 AAGCGTCCTT
* * *
57591378 GTGGCTATGCCACATTTATTTGATCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
*
57591405 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
57591432 GTGGCTCTACCACAATTATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
57591459 GTGACTCTGTCACA-TTATCT
1 GTGGCTCTGCCACATTTATCT
57591479 ATTTTGGCAG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
26 6 0.09
27 58 0.91
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACATTTATCTGTTCTG
Found at i:57599560 original size:40 final size:40
Alignment explanation
Indices: 57599489--57599585 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
57599479 CAACTATTTG
** *
57599489 TGGCACTTAGTGTGCAATTCAACATAGCTTCGGCTAAATA
1 TGGCACTTAGTGTGTGATTCAACACAGCTTCGGCTAAATA
* * * **
57599529 TGGCACTTAGTGTGTGATTTAAGACATCTTCGGCTATGTA
1 TGGCACTTAGTGTGTGATTCAACACAGCTTCGGCTAAATA
57599569 TGGCACTTAGTGTGTGA
1 TGGCACTTAGTGTGTGA
57599586 GATATCGAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGTGATTCAACACAGCTTCGGCTAAATA
Found at i:57599631 original size:28 final size:29
Alignment explanation
Indices: 57599567--57599637 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
57599557 TTCGGCTATG
*
57599567 TATGGCACTTAGTGTGTGAGATATCGAGA
1 TATGGCACTTAGTGTGTGAAATATCGAGA
* *
57599596 -GTGACACTTAGTGTGTGAAATATCGA-A
1 TATGGCACTTAGTGTGTGAAATATCGAGA
57599623 TATGGCACTT-GTGTG
1 TATGGCACTTAGTGTG
57599638 CGAGACATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.17
28 30 0.83
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (29 bp):
TATGGCACTTAGTGTGTGAAATATCGAGA
Found at i:57600424 original size:35 final size:35
Alignment explanation
Indices: 57600385--57600452 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
57600375 GAAAGTATGT
57600385 GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
1 GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
*
57600420 GCAAAATGGGTGGCAAAAAGGCTTGGTAAAATG
1 GCAAAATGGGTGGCAAAAAGACTTGGTAAAATG
57600453 ACCTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.32, T:0.18
Consensus pattern (35 bp):
GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
Found at i:57602762 original size:39 final size:39
Alignment explanation
Indices: 57602675--57602788 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
57602665 TATGGTAACC
** * *
57602675 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57602715 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57602754 CGCCCAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
57602789 TCGAACATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 50 0.77
40 15 0.23
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57610149 original size:39 final size:39
Alignment explanation
Indices: 57610031--57610213 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
57610021 TCGTTCAAAC
* * ** * **
57610031 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
57610071 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
57610111 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
57610150 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
57610189 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
57610214 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:57615596 original size:40 final size:40
Alignment explanation
Indices: 57615511--57615661 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
57615501 AATTGAATGA
* * * **
57615511 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
57615551 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
57615592 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
57615631 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57615662 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:57615675 original size:40 final size:40
Alignment explanation
Indices: 57615548--57615677 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
57615538 ATGCTGGAAA
* * *
57615548 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
57615588 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
57615628 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
57615668 TTATATCCGG
1 TTATATCCGG
57615678 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:57623581 original size:40 final size:40
Alignment explanation
Indices: 57623496--57623646 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
57623486 AATTGAATGA
* * * **
57623496 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
57623536 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
57623577 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
57623616 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57623647 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:57623660 original size:40 final size:40
Alignment explanation
Indices: 57623533--57623662 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
57623523 ATGCTGGAAA
* * *
57623533 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
57623573 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
57623613 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
57623653 TTATATCCGG
1 TTATATCCGG
57623663 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:57625108 original size:31 final size:31
Alignment explanation
Indices: 57625086--57625152 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
57625076 AATCCGAATT
* *
57625086 AGAATTAGTTTCAGGTAACAGAATCAAAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATC
*
57625117 AGAATCAGTATCAGGTAACAAAATCAAAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATC
57625148 AGAAT
1 AGAAT
57625153 GTGAATGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.22
Consensus pattern (31 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATC
Found at i:57625124 original size:25 final size:26
Alignment explanation
Indices: 57625098--57625149 Score: 56
Period size: 25 Copynumber: 2.1 Consensus size: 26
57625088 AATTAGTTTC
*
57625098 AGGTAACA-G-AATCAAAATCAGAATC
1 AGGTAACAGGTAA-CAAAATCAAAATC
*
57625123 A-GTATCAGGTAACAAAATCAAAATC
1 AGGTAACAGGTAACAAAATCAAAATC
57625148 AG
1 AG
57625150 AATGTGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
24 5 0.23
25 15 0.68
26 2 0.09
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.17
Consensus pattern (26 bp):
AGGTAACAGGTAACAAAATCAAAATC
Found at i:57625325 original size:27 final size:26
Alignment explanation
Indices: 57625283--57625384 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
57625273 GCTCAGTTAT
* *
57625283 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
57625310 CAGATATTATGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
57625336 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
57625364 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
57625385 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.78
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:57627238 original size:29 final size:29
Alignment explanation
Indices: 57627205--57627287 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
57627195 GTGACGAGAT
*
57627205 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57627234 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57627263 TGGCACTAAGTGTGCA-GCT-GAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATA
57627288 GGCACTGTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
27 6 0.11
28 3 0.06
29 44 0.83
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57635106 original size:29 final size:29
Alignment explanation
Indices: 57635073--57635150 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
57635063 GTGACGAGAT
*
57635073 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57635102 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57635131 TGGCACTAAGTGTGCA-GCTG
1 TGGCACTAAGTGTGCATGCTG
57635151 ATAGCACTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 4 0.08
29 44 0.92
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57639117 original size:20 final size:22
Alignment explanation
Indices: 57639092--57639133 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
57639082 ATTTCGTACA
57639092 TTGGCCCATTT-TC-TTCGTTT
1 TTGGCCCATTTCTCATTCGTTT
*
57639112 TTGGCCCGTTTCTCATTCGTTT
1 TTGGCCCATTTCTCATTCGTTT
57639134 CACTCTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.05, C:0.26, G:0.17, T:0.52
Consensus pattern (22 bp):
TTGGCCCATTTCTCATTCGTTT
Found at i:57640596 original size:40 final size:40
Alignment explanation
Indices: 57640551--57640717 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
57640541 CGGAATATAA
57640551 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57640591 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57640631 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57640671 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57640710 CCGGATAT
1 CCGGATAT
57640718 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57640701 original size:80 final size:79
Alignment explanation
Indices: 57640567--57640717 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
57640557 ATAATCACGT
*
57640567 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
57640632 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
57640647 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
57640710 CCGGATAT
64 CCGGATAT
57640718 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57641565 original size:17 final size:19
Alignment explanation
Indices: 57641542--57641587 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57641532 AAGAAGCATG
57641542 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57641560 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57641578 AATCATGCTC
1 AATCATGCTC
57641588 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:57648603 original size:40 final size:40
Alignment explanation
Indices: 57648558--57648724 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
57648548 CGGAATATAA
57648558 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57648598 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57648638 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57648678 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57648717 CCGGATAT
1 CCGGATAT
57648725 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57648708 original size:80 final size:79
Alignment explanation
Indices: 57648574--57648724 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
57648564 ATAATCACGT
*
57648574 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
57648639 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
57648654 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
57648717 CCGGATAT
64 CCGGATAT
57648725 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57649572 original size:17 final size:19
Alignment explanation
Indices: 57649549--57649594 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57649539 AAGAAGCATG
57649549 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57649567 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57649585 AATCATGCTC
1 AATCATGCTC
57649595 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:57677479 original size:55 final size:53
Alignment explanation
Indices: 57677289--57677538 Score: 235
Period size: 55 Copynumber: 4.7 Consensus size: 53
57677279 ACGCAGGTAC
* * * * *
57677289 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* * *
57677338 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATACTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
57677391 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
57677446 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
57677499 GCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTA
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA
57677539 TCTTTAAACC
Statistics
Matches: 167, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
49 35 0.21
52 1 0.01
53 47 0.28
54 14 0.08
55 68 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:57677480 original size:108 final size:110
Alignment explanation
Indices: 57677336--57677536 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
57677326 ATCCTTTTGA
* *
57677336 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATACTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTA-GAAAGCTCACCAA
57677399 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
57677444 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAAGCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTAGAAAGCTCACCAAT
57677509 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
57677537 TATCTTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATACTTGCCTTAGAAAGCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:57685382 original size:43 final size:43
Alignment explanation
Indices: 57685242--57685399 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
57685232 ATATCAAACA
* * *
57685242 ATGCCAAACGTCCTAGACGTGGTCTTACATGCT-ATC-TCATATCG
1 ATGCC-AACGTCCCAGACATGGTCTTACATG-TAATCAT-ATAACG
* * * * *
57685286 ATGCC-ACTATCCTAGACAGGGTCTTACACG-AATCAAAT-ACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCATATAACG
* * *
57685327 ATGCCGATGTCCCAGACATGGTATTACATGTAATCATATAACG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCATATAACG
* *
57685370 ATGCCAACGTCCCAAACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACATGGTCTTACATG
57685400 AGAACACATA
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
41 24 0.27
42 15 0.17
43 46 0.51
44 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCATATAACG
Found at i:57694036 original size:27 final size:27
Alignment explanation
Indices: 57694001--57694080 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
57693991 ATAAATACCT
*
57694001 CACATAGGGGCAAAACAGTCAATTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
** ***
57694028 CATGTAGGGGCATTTCAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
*
57694055 CACATAAGGGCAAAACAGTCATTTTA
1 CACATAGGGGCAAAACAGTCATTTTA
57694081 TCGATTATGG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
CACATAGGGGCAAAACAGTCATTTTAC
Found at i:57697673 original size:40 final size:40
Alignment explanation
Indices: 57697599--57697780 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
57697589 AACCCAAGTA
* *
57697599 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
57697638 CCTTCGGGTCTTAGCCCCGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
57697678 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
57697718 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
57697758 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57697781 CATTCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 114 0.88
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:57702236 original size:40 final size:40
Alignment explanation
Indices: 57702162--57702379 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
57702152 AACCCAAGTA
* *
57702162 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
57702201 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
57702241 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
57702281 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
57702321 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA--
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
57702359 --TTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
57702380 CATTCGAATA
Statistics
Matches: 171, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
36 21 0.12
39 12 0.07
40 137 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:57710616 original size:40 final size:40
Alignment explanation
Indices: 57710550--57710716 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
57710540 AAATTGAATG
* * *
57710550 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57710589 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
57710629 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57710669 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57710709 ATATCCGG
1 ATATCCGG
57710717 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57718603 original size:40 final size:40
Alignment explanation
Indices: 57718538--57718703 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
57718528 AAATTGAATG
* * *
57718538 ATATCCGGGCTAAG--CCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57718576 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
57718616 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57718656 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57718696 ATATCCGG
1 ATATCCGG
57718704 TTATATTCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
38 13 0.13
39 3 0.03
40 84 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57721576 original size:41 final size:41
Alignment explanation
Indices: 57721531--57721648 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
57721521 TGAAAGATAA
57721531 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
57721572 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57721602 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57721643 ATGTAG
1 ATGTAG
57721649 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:57721587 original size:71 final size:71
Alignment explanation
Indices: 57721499--57721662 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57721489 GAGATGTATC
57721499 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57721564 AGGACA
66 AGGACA
57721570 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57721635 AGGACA
66 AGGACA
57721641 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57721663 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57731162 original size:81 final size:80
Alignment explanation
Indices: 57731036--57731235 Score: 219
Period size: 81 Copynumber: 2.5 Consensus size: 80
57731026 ACGATTCTTA
* * *
57731036 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCAGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTC-GA
**
57731100 ACA-AAGTCCGGTTATG
65 A-ATAAGTCCAATTATG
* * *
57731116 ACACTGACTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* *
57731179 AAATTAAGTTCAATTATT
64 AAA-TAAGTCCAATTATG
*
57731197 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
57731236 TACACCCCGA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
79 1 0.01
80 15 0.15
81 49 0.49
82 31 0.31
83 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (80 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA
ATAAGTCCAATTATG
Found at i:57731172 original size:41 final size:41
Alignment explanation
Indices: 57731037--57731221 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
57731027 CGATTCTTAA
* * *
57731037 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
57731076 CCACTGGCTCGAAGGCCCTTC-AGAACAAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGA-AACTAAGTTCGGTTATTAG
*
57731117 CACTGACTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* **
57731158 CACTGGCTCAAAAGCCCTTCGAAATTAAGTTCAATTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
57731199 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
57731222 CCCAAGCTCG
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
40 42 0.34
41 78 0.63
43 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:57737634 original size:18 final size:18
Alignment explanation
Indices: 57737613--57737657 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
57737603 ACTGTTAAGT
57737613 CTAAATTTACAATTAACA
1 CTAAATTTACAATTAACA
*
57737631 CTAAATTTACAATTAATA
1 CTAAATTTACAATTAACA
57737649 CTAAATTTA
1 CTAAATTTA
57737658 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAAATTTACAATTAACA
Found at i:57738194 original size:18 final size:20
Alignment explanation
Indices: 57738163--57738200 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
57738153 ATTACCAAGT
57738163 TCAAGATTTGGATA-AAAAA
1 TCAAGATTTGGATATAAAAA
*
57738182 TCAA-ATTTTGATATAAAAA
1 TCAAGATTTGGATATAAAAA
57738201 AATAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (20 bp):
TCAAGATTTGGATATAAAAA
Found at i:57742202 original size:14 final size:14
Alignment explanation
Indices: 57742183--57742223 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
57742173 TAAACAACGT
57742183 TAAAGAAATAGATA
1 TAAAGAAATAGATA
57742197 TAAAG-AATAGA-A
1 TAAAGAAATAGATA
57742209 TAAAAGAAAATAGAT
1 T-AAAG-AAATAGAT
57742224 GCTCATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.09
13 10 0.43
14 5 0.22
15 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.20
Consensus pattern (14 bp):
TAAAGAAATAGATA
Found at i:57745952 original size:40 final size:40
Alignment explanation
Indices: 57745751--57745950 Score: 231
Period size: 40 Copynumber: 5.0 Consensus size: 40
57745741 TGATACCCAA
* *
57745751 GCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGG
* * *
57745791 CCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGG
* *
57745831 GCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCCGG
* * ** *
57745871 GCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGG
** * * *
57745911 TTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 GCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGG
57745951 TTAAATTCCG
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 133 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
GCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGG
Found at i:57756757 original size:48 final size:48
Alignment explanation
Indices: 57756701--57756933 Score: 295
Period size: 48 Copynumber: 4.9 Consensus size: 48
57756691 GAAGTGCGCA
* * * * * *
57756701 TGTGTAAGACCATGTCTAGGAGATGGCATCGATGACGATTTATATGCC
1 TGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCC
* * *
57756749 TGTGTAAGACCATGTTTGGGACATGGCATTGACGATGATATATGTGCT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCC
* * * * *
57756797 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATTTGTC
1 TGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCC
* * *
57756845 TGTGTAAGACCATGTGTGGGACATGGCATCGATGATGATATATGTGCT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCC
* *
57756893 TGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATAT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
57756934 GTGGATTCAT
Statistics
Matches: 156, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 156 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCC
Found at i:57756865 original size:96 final size:96
Alignment explanation
Indices: 57756701--57756933 Score: 358
Period size: 96 Copynumber: 2.4 Consensus size: 96
57756691 GAAGTGCGCA
* *** * * *
57756701 TGTGTAAGACCATGTCTAGGAGATGGCATCGATGACGATTTATATGCCTGTGTAAGACCATGTTT
1 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATATGCCTGTGTAAGACCATGTGT
*
57756766 GGGACATGGCATTGACGATGATATATGTGCT
66 GGGACATGGCATCGACGATGATATATGTGCT
* *
57756797 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATTTGTCTGTGTAAGACCATGTGT
1 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATATGCCTGTGTAAGACCATGTGT
*
57756862 GGGACATGGCATCGATGATGATATATGTGCT
66 GGGACATGGCATCGACGATGATATATGTGCT
*
57756893 TGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATAT
1 TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATAT
57756934 GTGGATTCAT
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 125 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (96 bp):
TGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATATATGCCTGTGTAAGACCATGTGT
GGGACATGGCATCGACGATGATATATGTGCT
Found at i:57758564 original size:46 final size:46
Alignment explanation
Indices: 57758514--57758686 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
57758504 TGGTTGAGCA
57758514 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
57758560 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57758605 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57758653 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57758687 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57758670 original size:93 final size:93
Alignment explanation
Indices: 57758511--57758681 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
57758501 GGATGGTTGA
* *
57758511 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57758576 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
57758604 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
57758669 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
57758682 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57764671 original size:15 final size:15
Alignment explanation
Indices: 57764651--57764719 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
57764641 GTATCTTGGG
57764651 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
57764666 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
57764681 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
57764696 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
57764711 TTTCTTTAT
1 TTTCTTTAT
57764720 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:57764720 original size:30 final size:30
Alignment explanation
Indices: 57764642--57764729 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
57764632 CATAGTATCG
* * * *
57764642 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
57764672 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
57764702 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
57764730 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:57769492 original size:14 final size:13
Alignment explanation
Indices: 57769468--57769497 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
57769458 GGTTGTTTAT
57769468 TAAACTAATTAAC
1 TAAACTAATTAAC
57769481 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
57769495 TAA
1 TAA
57769498 TTCAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:57770540 original size:10 final size:11
Alignment explanation
Indices: 57770512--57770539 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
57770502 CGATTTGGTC
57770512 CCTTTTTGGCT
1 CCTTTTTGGCT
57770523 CCTTTTTGGCT
1 CCTTTTTGGCT
57770534 CCTTTT
1 CCTTTT
57770540 GACTCTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.14, T:0.57
Consensus pattern (11 bp):
CCTTTTTGGCT
Found at i:57775436 original size:40 final size:40
Alignment explanation
Indices: 57775371--57775531 Score: 166
Period size: 40 Copynumber: 4.0 Consensus size: 40
57775361 GGATTTAACT
** *
57775371 GGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGCCC
* *** *
57775410 GGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGCCC
57775450 GGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGCCC
* * * * *
57775490 GGATATAATC-ACTAGAATAAATGCCTTCGGGACTTAGCCC
1 GGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGCCC
57775530 GG
1 GG
57775532 GTATCATTCA
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
39 7 0.07
40 92 0.90
41 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
GGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGCCC
Found at i:57782515 original size:40 final size:40
Alignment explanation
Indices: 57782343--57782508 Score: 280
Period size: 40 Copynumber: 4.2 Consensus size: 40
57782333 AACCCAAGTA
* *
57782343 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57782382 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57782422 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
57782462 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57782502 CCTTCGG
1 CCTTCGG
57782509 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.10
40 108 0.90
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57790040 original size:39 final size:38
Alignment explanation
Indices: 57789913--57790083 Score: 175
Period size: 38 Copynumber: 4.4 Consensus size: 38
57789903 TAGAGACCCA
* *
57789913 CAGGCTATA-TGCTGGAATTATATCTGGGTTAAATCCCG
1 CAGGCT-TAGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
57789951 CAGGCTTCA-TGCTCGTAATATATCCAGGTTAAATCCCG
1 CAGGCTT-AGTGCTGGTATTATATCCGGGTTAAATCCCG
*
57789989 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAAGTCCCG
1 CAGGCTTAGTGCTGGTATTATATCCGGGTTAAA-TCCCG
* * **
57790028 CAGGCCTAGTGCTGGTATTATATCTGAACTTAAAGTCCCG
1 CAGGCTTAGTGCTGGTATTATATCCG-GGTTAAA-TCCCG
* *
57790068 CAGGTTTTGTGCTGGT
1 CAGGCTTAGTGCTGGT
57790084 GACTAGATTC
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 59 0.53
39 28 0.25
40 24 0.21
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
CAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:57791197 original size:29 final size:28
Alignment explanation
Indices: 57791154--57791249 Score: 104
Period size: 29 Copynumber: 3.4 Consensus size: 28
57791144 AATGTGACTA
57791154 GGCCTAATGGGCCATATAAATGTGATTTG
1 GGCCTAAT-GGCCATATAAATGTGATTTG
* * *
57791183 GGCCTAATGGACCATATATAGGTGATTTA
1 GGCCTAATGG-CCATATAAATGTGATTTG
* *
57791212 GGCCTAATTGGCCATATGAATATGA-TTG
1 GGCCTAA-TGGCCATATAAATGTGATTTG
*
57791240 GGCTTAATGG
1 GGCCTAATGG
57791250 GTCAGATACA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.05
28 10 0.18
29 40 0.71
30 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GGCCTAATGGCCATATAAATGTGATTTG
Found at i:57791676 original size:8 final size:8
Alignment explanation
Indices: 57791663--57791688 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
57791653 ATGAGGTGCA
57791663 AACGGAGG
1 AACGGAGG
57791671 AACGGAGG
1 AACGGAGG
57791679 AACGGAGG
1 AACGGAGG
57791687 AA
1 AA
57791689 GTATATGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.46, T:0.00
Consensus pattern (8 bp):
AACGGAGG
Found at i:57795074 original size:28 final size:28
Alignment explanation
Indices: 57794997--57795078 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
57794987 GCATGAATAC
* * * *
57794997 GAATGTGACTGGGCCTAACGGGCCATAT
1 GAATATGATTGGGCCTAATGGGCCAGAT
*
57795025 AAATATGATTTGGGCCTAATGGGCCAGAT
1 GAATATGA-TTGGGCCTAATGGGCCAGAT
*
57795054 GAATATGATTGGGCTTAATGGGCCA
1 GAATATGATTGGGCCTAATGGGCCA
57795079 AATACAGGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
28 22 0.48
29 24 0.52
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (28 bp):
GAATATGATTGGGCCTAATGGGCCAGAT
Found at i:57806118 original size:50 final size:49
Alignment explanation
Indices: 57806038--57806147 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 49
57806028 CTACAAATCA
* * *
57806038 GTGG-TTGTTCACAAAGTGTTTCAGTGGTAGTATATTTGCATA-TCAGTG
1 GTGGCTTGTCCACAAAGTGTTTCAGTGGTAGTATATCTACA-ACTCAGTG
* *
57806086 GTGGCTTTTCCACAAAGTGTTATCAGTGGTAGTTTATCTACAACTCAGTG
1 GTGGCTTGTCCACAAAGTGTT-TCAGTGGTAGTATATCTACAACTCAGTG
57806136 GTGGCTTGTCCA
1 GTGGCTTGTCCA
57806148 TAAATAGTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 4 0.08
49 15 0.28
50 34 0.64
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (49 bp):
GTGGCTTGTCCACAAAGTGTTTCAGTGGTAGTATATCTACAACTCAGTG
Found at i:57812246 original size:24 final size:24
Alignment explanation
Indices: 57812215--57812388 Score: 303
Period size: 24 Copynumber: 7.2 Consensus size: 24
57812205 GGCCTAGTCG
*
57812215 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
57812239 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
57812263 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
57812287 CTTTTTAATAACTGGGGCATAAGCC
1 C-TTTTAATAACTGGGGCATAAGCC
57812312 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
57812336 CTTTTAATAACTGGGGCATAAGCT
1 CTTTTAATAACTGGGGCATAAGCC
*
57812360 CTTTTAATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
57812384 CTTTT
1 CTTTT
57812389 GCACTTCCTC
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
24 120 0.84
25 23 0.16
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:57812315 original size:73 final size:72
Alignment explanation
Indices: 57812215--57812388 Score: 303
Period size: 73 Copynumber: 2.4 Consensus size: 72
57812205 GGCCTAGTCG
* *
57812215 CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGC
57812280 ATAAGCC
66 ATAAGCC
57812287 CTTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
1 C-TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
*
57812352 CATAAGCT
65 CATAAGCC
*
57812360 CTTTTAATCACTGGGGCATAAGCCCTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTT
57812389 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
72 28 0.29
73 69 0.71
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (72 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGC
ATAAGCC
Found at i:57812464 original size:20 final size:20
Alignment explanation
Indices: 57812439--57812505 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57812429 TTATGAATAC
57812439 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
57812459 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57812479 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57812499 ACCATGT
1 ATCATGT
57812506 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:57812470 original size:11 final size:11
Alignment explanation
Indices: 57812439--57812494 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57812429 TTATGAATAC
57812439 ATCATGTGCAT
1 ATCATGTGCAT
*
57812450 ATCA--TACAT
1 ATCATGTGCAT
57812459 ATCATGTGCAT
1 ATCATGTGCAT
*
57812470 ATCA--TACAT
1 ATCATGTGCAT
*
57812479 GTCATGTGCAT
1 ATCATGTGCAT
57812490 ATCAT
1 ATCAT
57812495 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:57819760 original size:27 final size:26
Alignment explanation
Indices: 57819712--57819763 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57819702 GCGAGGCTGC
*
57819712 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
57819738 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
57819764 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57820506 original size:27 final size:27
Alignment explanation
Indices: 57820413--57820610 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
57820403 AGGGCAAAAT
* * * *
57820413 GGTAATTTTACCCCACAAGGGT-TCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57820439 GGTAATTCTACCCTACAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57820465 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57820492 AGTAATTCTATCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57820519 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
57820546 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
57820573 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57820600 GGTAATTCTAC
1 GGTAATTCTAC
57820611 AACTTATCCA
Statistics
Matches: 150, Mismatches: 20, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
26 42 0.28
27 108 0.72
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57823655 original size:27 final size:27
Alignment explanation
Indices: 57823617--57823678 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
57823607 CCTTAATTGA
*
57823617 TAAAATGATTGTTTTGCCGTTATGA-GG
1 TAAAATGATTGTTTTGCCCTTAT-ATGG
57823644 TAAAATGATTGTTTTGCCCTTATATGG
1 TAAAATGATTGTTTTGCCCTTATATGG
57823671 TAAAATGA
1 TAAAATGA
57823679 CTGAAATGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATATGG
Found at i:57824504 original size:19 final size:18
Alignment explanation
Indices: 57824480--57824522 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
57824470 TAGCAGTAGG
*
57824480 AAAAACACGCAGGTTTTCA
1 AAAAAC-CGAAGGTTTTCA
*
57824499 AAAAACCTAAGGTTTTCA
1 AAAAACCGAAGGTTTTCA
57824517 AGAAAA
1 A-AAAA
57824523 AAAAAAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (18 bp):
AAAAACCGAAGGTTTTCA
Found at i:57827026 original size:40 final size:40
Alignment explanation
Indices: 57826971--57827152 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
57826961 TATTCGAATG
57826971 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
57827011 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
57827051 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57827091 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
57827131 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57827153 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.10
40 119 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57835031 original size:40 final size:40
Alignment explanation
Indices: 57834976--57835156 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
57834966 TATTCGAATG
57834976 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
57835016 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57835056 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57835096 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
57835136 ATATCC-GGCTAAAT-CCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57835157 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
38 7 0.05
39 6 0.05
40 117 0.89
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Done.