Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 215 of 444
Found at i:60155025 original size:43 final size:43
Alignment explanation
Indices: 60154938--60155108 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
60154928 CATAGGGTTT
* * * ** *
60154938 TCGATATGT-ATTCTCATGTAAGACCACGTTTGGGATGTTCGCA
1 TCGATATGTGATT-ACATGTAAGACCATGTCTGGGACATTGGCA
* *
60154981 TCGATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCA
* * * *
60155024 TC-ATATTTGATT-CATGTAAGACCCTATCTGGGACAGTGGCA
1 TCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCA
* *
60155065 TTGTTATGTGA-TAGCATGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTA-CATGTAAGACCATGTCTGGGACATTGGCA
60155108 T
1 T
60155109 TGTACGATAT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 26 0.25
42 15 0.14
43 60 0.58
44 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCA
Found at i:60162895 original size:22 final size:22
Alignment explanation
Indices: 60162853--60162896 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60162843 AATTATTTAC
* *
60162853 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
60162875 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
60162897 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:60163184 original size:40 final size:40
Alignment explanation
Indices: 60163122--60163303 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
60163112 AACCCAAGTA
* * *
60163122 CCTTCGGGATTTAG-TCGGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
60163161 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
60163201 CCTTCGGGACTTAGCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
60163241 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
60163281 CCTTCGGGATTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
60163304 CATTCAAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 117 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:60163269 original size:80 final size:80
Alignment explanation
Indices: 60163122--60163303 Score: 296
Period size: 80 Copynumber: 2.3 Consensus size: 80
60163112 AACCCAAGTA
* *
60163122 CCTTCGGGATTTAG-TCGGATATAGCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGATTTAGCTCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
60163186 TCACTAGCACAAATG
66 TCACTAGCACAAAAG
*
60163201 CCTTCGGGACTTAGCTCGGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGATTTAGCTCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
60163265 GTCACTAGCACAAAAG
65 GTCACTAGCACAAAAG
*
60163281 CCTTCGGGATTTAGCCCGGATAT
1 CCTTCGGGATTTAGCTCGGATAT
60163304 CATTCAAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
79 13 0.14
80 79 0.83
81 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGATTTAGCTCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAAAG
Found at i:60176420 original size:82 final size:80
Alignment explanation
Indices: 60176298--60176518 Score: 292
Period size: 82 Copynumber: 2.8 Consensus size: 80
60176288 TATTCGGATG
*
60176298 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
**
60176362 TTTGTGCGAGTAGTTG-CT
66 TTCATGC---TAG-TGACT
*
60176380 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
60176444 TTCATGCTAGTGACT
66 TTCATGCTAGTGACT
* * *
60176459 ATATCCGGGCTAAGACCC-AAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
60176519 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
78 16 0.12
79 31 0.24
80 15 0.12
81 15 0.12
82 51 0.40
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:60176438 original size:40 final size:40
Alignment explanation
Indices: 60176298--60176518 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
60176288 TATTCGGATG
* *
60176298 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
60176337 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
60176380 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
60176419 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
60176459 ATATCCGGGCTAAGACCC-AAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
60176498 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
60176519 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 10, Indels: 18
0.85 0.05 0.09
Matches are distributed among these distances:
38 11 0.07
39 51 0.31
40 65 0.40
42 28 0.17
43 7 0.04
44 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:60184559 original size:82 final size:79
Alignment explanation
Indices: 60184418--60184639 Score: 299
Period size: 82 Copynumber: 2.8 Consensus size: 79
60184408 TATTCGGATG
*
60184418 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
60184483 TT-TGTGTGAGTAGTTGCT
66 TTCTG-CT-AGT-G--ACT
*
60184501 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
60184565 TTCTGCTAGTGACT
66 TTCTGCTAGTGACT
* * *
60184579 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
60184640 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
78 19 0.15
79 37 0.29
80 3 0.02
81 3 0.02
82 62 0.48
83 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCTGCTAGTGACT
Found at i:60184572 original size:39 final size:40
Alignment explanation
Indices: 60184418--60184639 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
60184408 TATTCGGATG
* *
60184418 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
60184458 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G--ACT
60184501 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
60184540 ATATCCGGGCTAAGTCCCGAAGGCA-TTCTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
60184579 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
60184619 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
60184640 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
39 55 0.34
40 70 0.43
41 3 0.02
42 30 0.18
43 6 0.04
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:60193174 original size:40 final size:40
Alignment explanation
Indices: 60193080--60193194 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
60193070 CACGATTTGA
* * *
60193080 ACAAATGCCTTCGCGTCTTAGCCCGGATTTAACAACTTGC
1 ACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGC
* **
60193120 ACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGC
1 ACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGC
* * *
60193160 ATAAATGTCC-TCGGGACTTAGCCCGGATATCACAA
1 ACAAATG-CCTTCGGGTCTTAGCCCGGATATAACAA
60193195 TTTGCTCATG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
ACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGC
Found at i:60194996 original size:27 final size:27
Alignment explanation
Indices: 60194965--60195208 Score: 294
Period size: 27 Copynumber: 9.0 Consensus size: 27
60194955 GGCTGTCACA
* * *
60194965 CGTTTTACCCTTGATTTATAGAATTAT
1 CGTTTTACCCTCGATTTACAGAATTAC
* *
60194992 TGTTTTACCCTCGATTTACAGAATTAT
1 CGTTTTACCCTCGATTTACAGAATTAC
** *
60195019 CGTTTTACCCTCGATTTTTAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
60195046 CGTTTTACCCTCGATTTATAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
60195073 CGTTTTACCCTC-AGTTTACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
* *
60195100 CATTTTACACTCGATTTACAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
*
60195127 CATTTTACCCTC-AGTTTACAGAATTAC
1 CGTTTTACCCTCGA-TTTACAGAATTAC
** * *
60195154 TATTTTACCCTCAATTTATAGAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
* *
60195181 CGTTTTACCCTCGATTTGCAAAATTAC
1 CGTTTTACCCTCGATTTACAGAATTAC
60195208 C
1 C
60195209 AAAATATCCC
Statistics
Matches: 191, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 187 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGTTTTACCCTCGATTTACAGAATTAC
Found at i:60195209 original size:81 final size:81
Alignment explanation
Indices: 60194967--60195209 Score: 326
Period size: 81 Copynumber: 3.0 Consensus size: 81
60194957 CTGTCACACG
* * * *
60194967 TTTTACCCTTGATTTATAGAATTATTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCG
1 TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCG
** *
60195032 ATTTTTAAAATTACCG
66 ATTTACAAAATTACCA
* * * *
60195048 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACACTCG
1 TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCG
*
60195113 ATTTACAGAATTACCA
66 ATTTACAAAATTACCA
* * *
60195129 TTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTC
1 TTTTACCCTCGA-TTTATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTC
*
60195193 GATTTGCAAAATTACCA
65 GATTTACAAAATTACCA
60195210 AAATATCCCT
Statistics
Matches: 140, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.01
81 139 0.99
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCG
ATTTACAAAATTACCA
Found at i:60195225 original size:27 final size:27
Alignment explanation
Indices: 60195195--60195301 Score: 160
Period size: 27 Copynumber: 4.0 Consensus size: 27
60195185 TTACCCTCGA
*
60195195 TTTGCAAAATTACCAAAATATCCCTAG
1 TTTGCAAAATTACCAAAATACCCCTAG
*
60195222 TTTGCAAAATTACCAAAATACCCCTGG
1 TTTGCAAAATTACCAAAATACCCCTAG
* * *
60195249 TTTGTAAAATTACCAAAATACCCATGG
1 TTTGCAAAATTACCAAAATACCCCTAG
*
60195276 TTTGCAAAATTACTAAAATACCCCTA
1 TTTGCAAAATTACCAAAATACCCCTA
60195302 TAAGGTAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TTTGCAAAATTACCAAAATACCCCTAG
Found at i:60195244 original size:81 final size:81
Alignment explanation
Indices: 60194997--60195244 Score: 185
Period size: 81 Copynumber: 3.1 Consensus size: 81
60194987 ATTATTGTTT
* * * * ** ****
60194997 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTC-GAT
1 TACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACCAAAATACCCTCAG-T
* * ****
60195061 TTATAGAATTACCGTTT
65 TTACAAAATTACCAAAA
* * ***
60195078 TACCCTCAGTTTACAGAATTACCATTTTACACTCGATTTACAGAATTACCATTTTACCCTCAGTT
1 TACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACCAAAATACCCTCAGTT
* * ***
60195143 TACAGAATTACTATTT
66 TACAAAATTACCAAAA
* * * *
60195159 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTGCAAAATTACCAAAATATCCCT-AGT
1 TACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACCAAAATA-CCCTCAGT
*
60195223 TTGCAAAATTACCAAAA
65 TTACAAAATTACCAAAA
60195240 TACCC
1 TACCC
60195245 CTGGTTTGTA
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
81 133 0.96
82 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACCAAAATACCCTCAGTT
TACAAAATTACCAAAA
Found at i:60195310 original size:54 final size:53
Alignment explanation
Indices: 60195200--60195326 Score: 166
Period size: 54 Copynumber: 2.4 Consensus size: 53
60195190 CTCGATTTGC
* **
60195200 AAAATTACCAAAATATCCCTAGTTTGCAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGCAAAATTACCAAAATACCCCTGATAGGT
* *
60195254 AAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCCT-ATAAGGT
1 AAAATTACCAAAATACCC-TAGTTTGCAAAATTACCAAAATACCCCTGAT-AGGT
*
60195308 AAAATTACCGAAATACCCT
1 AAAATTACCAAAATACCCT
60195327 TGTAAGGTAG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
53 5 0.08
54 60 0.92
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.27
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGCAAAATTACCAAAATACCCCTGATAGGT
Found at i:60195311 original size:27 final size:27
Alignment explanation
Indices: 60195200--60195344 Score: 89
Period size: 27 Copynumber: 5.4 Consensus size: 27
60195190 CTCGATTTGC
* ** *
60195200 AAAATTACCAAAATATCCCTAGT-TTGC
1 AAAATTACCAAAATACCCCTA-TAAGGT
* **
60195227 AAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-ATAAGGT
* * ** *
60195254 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCAAAATACCCCT-ATAAGGT
*
60195281 AAAATTACTAAAATACCCCTATAAGGT
1 AAAATTACCAAAATACCCCTATAAGGT
* * *
60195308 AAAATTACCGAAATACCCTTGTAAGGT
1 AAAATTACCAAAATACCCCTATAAGGT
*
60195335 AGAATTACCA
1 AAAATTACCA
60195345 TTTTGCCCCT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.99
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTATAAGGT
Found at i:60195341 original size:81 final size:81
Alignment explanation
Indices: 60195195--60195344 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 81
60195185 TTACCCTCGA
* ** **
60195195 TTTGCAAAATTACCAAAATATCCCTAGTTTGCAAAATTACCAAAATACCCCTGGTTTGTAAAATT
1 TTTGCAAAATTACCAAAATACCCCTAGTAGGCAAAATTACCAAAATACCCCTGGTAGGTAAAATT
60195260 ACCAAAATACCCATGG
66 ACCAAAATACCCATGG
* * * * *
60195276 TTTGCAAAATTACTAAAATACCCCTA-TAAGGTAAAATTACCGAAATA-CCCTTGTAAGGTAGAA
1 TTTGCAAAATTACCAAAATACCCCTAGT-AGGCAAAATTACCAAAATACCCCTGGT-AGGTAAAA
60195339 TTACCA
64 TTACCA
60195345 TTTTGCCCCT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
80 7 0.12
81 50 0.88
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (81 bp):
TTTGCAAAATTACCAAAATACCCCTAGTAGGCAAAATTACCAAAATACCCCTGGTAGGTAAAATT
ACCAAAATACCCATGG
Found at i:60208807 original size:40 final size:40
Alignment explanation
Indices: 60208741--60208907 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
60208731 AAATTGAATG
* * *
60208741 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
60208780 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
60208820 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
60208860 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
60208900 ATATCCGG
1 ATATCCGG
60208908 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:60215391 original size:40 final size:39
Alignment explanation
Indices: 60215346--60215553 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
60215336 CGGAATACAA
*
60215346 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60215386 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60215426 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
60215466 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
60215506 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
60215546 CCGGATAT
1 CCGGATAT
60215554 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:60215486 original size:80 final size:80
Alignment explanation
Indices: 60215346--60215552 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
60215336 CGGAATACAA
* * *
60215346 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
60215410 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
60215426 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
60215490 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
60215506 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
60215553 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:60223443 original size:40 final size:39
Alignment explanation
Indices: 60223398--60223605 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
60223388 CGGAATACAA
*
60223398 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60223438 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
60223478 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
60223518 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
60223558 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
60223598 CCGGATAT
1 CCGGATAT
60223606 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:60223538 original size:80 final size:80
Alignment explanation
Indices: 60223398--60223604 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
60223388 CGGAATACAA
* * *
60223398 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
60223462 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
60223478 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
60223542 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
60223558 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
60223605 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:60230378 original size:30 final size:30
Alignment explanation
Indices: 60230314--60230371 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
60230304 TGAGTAATTA
*
60230314 GGACTAAATTGAAAAAAATGATAATTTGAG
1 GGACTAAATTGAAAAAAATGATAATGTGAG
*
60230344 GGACTAAAATATGAAATAAATGA-AATGT
1 GGACT-AAAT-TGAAAAAAATGATAATGT
60230372 ATGGACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.21
31 8 0.33
32 11 0.46
ACGTcount: A:0.52, C:0.03, G:0.19, T:0.26
Consensus pattern (30 bp):
GGACTAAATTGAAAAAAATGATAATGTGAG
Found at i:60230955 original size:43 final size:41
Alignment explanation
Indices: 60230883--60230976 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 41
60230873 ATGTGTTCTC
** **
60230883 ATGTAAGACCATGCCTGGGATGTTGGCATCGATATGTGATTAT
1 ATGTAAGACCATGCCTGGGAAATCAGCATCG-TATGTGATT-T
* * *
60230926 GTGTAAGACCATGTCTGGGAAATCAGCATCGTATTTGATTT
1 ATGTAAGACCATGCCTGGGAAATCAGCATCGTATGTGATTT
60230967 ATGTAAGACC
1 ATGTAAGACC
60230977 CTATTTGGGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 10 0.23
42 8 0.19
43 25 0.58
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (41 bp):
ATGTAAGACCATGCCTGGGAAATCAGCATCGTATGTGATTT
Found at i:60241361 original size:30 final size:30
Alignment explanation
Indices: 60241327--60241388 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
60241317 TTCCTTTACT
*
60241327 TAAAC-TTTGCAAAAATTACATTTTTGCCCC
1 TAAACTTTTGC-AAAATTACACTTTTGCCCC
* *
60241357 TAAACTTTTGCATATTTACACTTTTGCCCC
1 TAAACTTTTGCAAAATTACACTTTTGCCCC
60241387 TA
1 TA
60241389 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (30 bp):
TAAACTTTTGCAAAATTACACTTTTGCCCC
Found at i:60244076 original size:598 final size:598
Alignment explanation
Indices: 60242938--60244716 Score: 3189
Period size: 598 Copynumber: 3.0 Consensus size: 598
60242928 TTTGCACGCC
* *
60242938 CTCCAAAGGATGCCAAATATTAGCCATAGTATTCCTAATTGCTAGAAAATTCACCACACTTGCAG
1 CTCCAAAGGATGCCAAATATTAGCCATAGTATTCCTCATTGCTGGAAAATTCACCACACTTGCAG
*
60243003 TAAGAAAACAACCCACCAAGCAAAAACTATACATGGCATTTTGTTCTCCCACATCCACTGGTATA
66 TAAGAAAACAACCCACCAAGCAAAAACTATACATGGCATTTTGTTCTCCCACATCCACCGGTATA
* *
60243068 GAGAATGCCTCTTCTTCGCCATCATCTAAACTTAATCCCGCCAAATCTTGCTCCATCTTCTTACG
131 GAGAATGCCTCTTCTTCGCCATCATCTAAACTTAGTTCCGCCAAATCTTGCTCCATCTTCTTACG
* * *
60243133 CAAGAAAACAAATGACCGAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGTATGA
196 CAAGAAAACAAATGACCAAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGCAAGA
60243198 AAGCAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCGTGTCATAGAAGACAGACA
261 AAGCAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCGTGTCATAGAAGACAGACA
60243263 AAAACGTGCCACACGGCAGACTTCTTATTTGTTTTTCTAATAATAATCATAAATAATTAATTCCA
326 AAAACGTGCCACACGGCAGACTTCTTATTTGTTTTTCTAATAATAATCATAAATAATTAATTCCA
60243328 TTTCAAATTTGTGGTCTCAAAATCACTGTTCTGACTAGACCCTAATTCAAGATATTACACTCATT
391 TTTCAAATTTGTGGTCTCAAAATCACTGTTCTGACTAGACCCTAATTCAAGATATTACACTCATT
* *
60243393 TGAACATACACACCGACAATCTTAATGGCTTATTTAGGCAACCAAAACATCTACAAACAAGGCCA
456 TGCACATACACACCGACAATCTTAATGGCATATTTAGGCAACCAAAACATCTACAAACAAGGCCA
60243458 AATCATGTCATTCCATTATCCACACTCAACATATTTGCAAAATTATATTTTTCCAAACCAAATAT
521 AATCATGTCATTCCATTATCCACACTCAACATATTTGCAAAATTATATTTTTCCAAACCAAATAT
60243523 TAGCCATAGTATT
586 TAGCCATAGTATT
* * *
60243536 CTTCAAAGGAGGCCAAATATTAGCCATAGTATTCCTCATTGTTGGAAAATTCACCACACTTGCAG
1 CTCCAAAGGATGCCAAATATTAGCCATAGTATTCCTCATTGCTGGAAAATTCACCACACTTGCAG
* * *
60243601 TAAGAAAACAACACAGCAAGCAAAAACCATACATGGCATTTTGTTCTCCCACATCCACCGGTATA
66 TAAGAAAACAACCCACCAAGCAAAAACTATACATGGCATTTTGTTCTCCCACATCCACCGGTATA
* * *
60243666 GAGAACGCCTCTTCTTCACCATCATCTAAACTTAGTTCCGCCAAATCTTACTCCATCTTCTTACG
131 GAGAATGCCTCTTCTTCGCCATCATCTAAACTTAGTTCCGCCAAATCTTGCTCCATCTTCTTACG
*
60243731 CAAGAAAACAAATAACCAAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGCAAGA
196 CAAGAAAACAAATGACCAAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGCAAGA
* *
60243796 AAGCAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCATGTCATAGAAGACAGAAA
261 AAGCAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCGTGTCATAGAAGACAGACA
* * * *
60243861 AAAACGTGCCACACGGTAGACTTCTTATTTATTTTTCTAATAATAATCATAATTAATTAACTCCA
326 AAAACGTGCCACACGGCAGACTTCTTATTTGTTTTTCTAATAATAATCATAAATAATTAATTCCA
* * * *
60243926 GTTCAAATTTGTGGTCTCAAAATTACTGTTCCGACTAGACCTTAATTCAAGATATTACACTCATT
391 TTTCAAATTTGTGGTCTCAAAATCACTGTTCTGACTAGACCCTAATTCAAGATATTACACTCATT
60243991 TGCACATACACACCGACAATCTTAATGGCATATTTAGGCAACCAAAACATCTACAAACAAGGCCA
456 TGCACATACACACCGACAATCTTAATGGCATATTTAGGCAACCAAAACATCTACAAACAAGGCCA
*
60244056 AATCATGTCATTCCATTATCCACACTCAACGTATTTGCAAAATTATATTTTTCCAAACCAAATAT
521 AATCATGTCATTCCATTATCCACACTCAACATATTTGCAAAATTATATTTTTCCAAACCAAATAT
*
60244121 TATCCATAGTATT
586 TAGCCATAGTATT
60244134 CTCCAAAGGATGCCAAATATTAGCCATAGTATTCCTCATTGCTGGAAAATTCACCACACTTGCAG
1 CTCCAAAGGATGCCAAATATTAGCCATAGTATTCCTCATTGCTGGAAAATTCACCACACTTGCAG
60244199 TAAGAAAACAACCCACCAAGCAAAAACTATACATGGCATTTTGTTCTCCCACATCCACCGGTATA
66 TAAGAAAACAACCCACCAAGCAAAAACTATACATGGCATTTTGTTCTCCCACATCCACCGGTATA
*
60244264 GAGAATGCCTCTTCTTCGCCATCATCTAAACTTAGTTCCGCCAAATCTTGCTCCATCTTCTTATG
131 GAGAATGCCTCTTCTTCGCCATCATCTAAACTTAGTTCCGCCAAATCTTGCTCCATCTTCTTACG
60244329 CAAGAAAACAAATGACCAAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGCAAGA
196 CAAGAAAACAAATGACCAAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGCAAGA
*
60244394 AAGTAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCGTGTCATAGAAGACAGACA
261 AAGCAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCGTGTCATAGAAGACAGACA
* * *
60244459 AAAACATGCCACATGGCAGACTTCTTATTTGTTTTTCTAATAATAATCATAAATAATTAATTCTA
326 AAAACGTGCCACACGGCAGACTTCTTATTTGTTTTTCTAATAATAATCATAAATAATTAATTCCA
**
60244524 TTTCAAATTTGTGGTCTCAAAATCACTGTTCTGACTAGACCCTAATTCGGGATATTACACTCATT
391 TTTCAAATTTGTGGTCTCAAAATCACTGTTCTGACTAGACCCTAATTCAAGATATTACACTCATT
*
60244589 TGCACATACACACCGACAATCTTAATGGCATATTTAGGCAACCAAAACATCTACAAACATGGCCA
456 TGCACATACACACCGACAATCTTAATGGCATATTTAGGCAACCAAAACATCTACAAACAAGGCCA
*
60244654 AATCATGTCATTCCATTATCCACACTCAACATATTTGCAAAATTATATTTTTCAAAACCAAAT
521 AATCATGTCATTCCATTATCCACACTCAACATATTTGCAAAATTATATTTTTCCAAACCAAAT
60244717 CATACCAAAC
Statistics
Matches: 1119, Mismatches: 62, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
598 1119 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (598 bp):
CTCCAAAGGATGCCAAATATTAGCCATAGTATTCCTCATTGCTGGAAAATTCACCACACTTGCAG
TAAGAAAACAACCCACCAAGCAAAAACTATACATGGCATTTTGTTCTCCCACATCCACCGGTATA
GAGAATGCCTCTTCTTCGCCATCATCTAAACTTAGTTCCGCCAAATCTTGCTCCATCTTCTTACG
CAAGAAAACAAATGACCAAACTCAATCAAGGAAACACGAACAGCACAGAACTATAGGGAGCAAGA
AAGCAAGTAAAACAGGAGAAATCTAAAGAGAAAACAAAACCACAGCGTGTCATAGAAGACAGACA
AAAACGTGCCACACGGCAGACTTCTTATTTGTTTTTCTAATAATAATCATAAATAATTAATTCCA
TTTCAAATTTGTGGTCTCAAAATCACTGTTCTGACTAGACCCTAATTCAAGATATTACACTCATT
TGCACATACACACCGACAATCTTAATGGCATATTTAGGCAACCAAAACATCTACAAACAAGGCCA
AATCATGTCATTCCATTATCCACACTCAACATATTTGCAAAATTATATTTTTCCAAACCAAATAT
TAGCCATAGTATT
Found at i:60258091 original size:39 final size:40
Alignment explanation
Indices: 60258036--60258254 Score: 313
Period size: 39 Copynumber: 5.5 Consensus size: 40
60258026 TTGATACCCA
* * *
60258036 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
**
60258076 GGCTAAG-CCCGAAGGCATTTGTGCGAGAGACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
60258115 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
*
60258154 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
60258193 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
60258233 GGCTAAGTCCTGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
60258255 AGCTAGTAGC
Statistics
Matches: 170, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
38 2 0.01
39 108 0.64
40 60 0.35
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:60258287 original size:39 final size:39
Alignment explanation
Indices: 60258044--60258287 Score: 255
Period size: 39 Copynumber: 6.2 Consensus size: 39
60258034 CAGGCTAAGT
* * * *
60258044 CCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAG
1 CCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAA
** *
60258083 CCCGAAGGCATTTGTGCGAGAGACTA-ATTCCGGGCTAAG
1 CCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAA
*
60258122 CCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG
1 CCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAA
* *
60258161 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA-A
* *
60258201 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA-A
* * *
60258241 CCTGAAGGCATTTGAGCTAG-TAGCTATATCC-GGCTAAA
1 CCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAA
60258279 CTCCGAAGG
1 C-CCGAAGG
60258288 TACTTGGTTT
Statistics
Matches: 188, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 122 0.65
40 65 0.35
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAA
Found at i:60266341 original size:39 final size:40
Alignment explanation
Indices: 60266286--60266503 Score: 313
Period size: 39 Copynumber: 5.5 Consensus size: 40
60266276 TTGATACCCA
* * *
60266286 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
**
60266326 GGCTAAG-CCCGAAGGCATTTGTGCGAGAGACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
60266365 GGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
*
60266403 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
60266442 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
60266482 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
60266504 AGCTAGTAGC
Statistics
Matches: 169, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
38 38 0.22
39 70 0.41
40 61 0.36
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:60266422 original size:77 final size:78
Alignment explanation
Indices: 60266286--60266503 Score: 307
Period size: 77 Copynumber: 2.8 Consensus size: 78
60266276 TTGATACCCA
* * *
60266286 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCG
1 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
*
60266351 AGAGACTA-ATTCCG
65 AGAGACTATA-ACCG
60266365 GGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
1 GGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
**
60266429 GTTACTATAACCG
66 GAGACTATAACCG
*
60266442 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
60266504 AGCTAGTAGC
Statistics
Matches: 127, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
77 69 0.54
78 3 0.02
79 41 0.32
80 14 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (78 bp):
GGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
GAGACTATAACCG
Found at i:60266536 original size:39 final size:39
Alignment explanation
Indices: 60266286--60266536 Score: 239
Period size: 39 Copynumber: 6.4 Consensus size: 39
60266276 TTGATACCCA
* * * *
60266286 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCG
1 GGCTAACT-CCGAAGGCATTTGTGCGAGTTACTATA-TCCG
**
60266326 GGCTAAGC-CCGAAGGCATTTGTGCGAGAGACTA-ATTCCG
1 GGCTAA-CTCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
*
60266365 GGCTAA-GCCGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAACTCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
*
60266403 GGCTAAGC-CCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAA-CTCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
60266442 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAACT-CCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
60266482 GGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-
1 GGCTAACT-CCGAAGGCATTTGTGCGAGTTA-CTATATCCG
60266521 GGCTAAACTCCGAAGG
1 GGCT-AACTCCGAAGG
60266537 TACTTGGTTT
Statistics
Matches: 190, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
38 35 0.18
39 81 0.43
40 74 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
GGCTAACTCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:60270130 original size:40 final size:40
Alignment explanation
Indices: 60269986--60270168 Score: 257
Period size: 39 Copynumber: 4.6 Consensus size: 40
60269976 GGATTGATAC
* * *
60269986 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATA
* *
60270026 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATA
*
60270065 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-A
*
60270104 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-A
60270144 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60270169 AGCTAGTAGC
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 2 0.01
39 70 0.52
40 63 0.47
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATA
Found at i:60270182 original size:40 final size:40
Alignment explanation
Indices: 60269986--60270191 Score: 232
Period size: 39 Copynumber: 5.2 Consensus size: 40
60269976 GGATTGATAC
* *
60269986 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATA-T
*
60270026 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATA-T
*
60270065 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAT
*
60270104 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAT
* *
60270144 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAT
60270184 CC-GGCTAA
1 CCGGGCTAA
60270192 ACTCCGAAGG
Statistics
Matches: 153, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
39 77 0.50
40 76 0.50
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATAT
Found at i:60270190 original size:79 final size:78
Alignment explanation
Indices: 60269986--60270201 Score: 260
Period size: 79 Copynumber: 2.7 Consensus size: 78
60269976 GGATTGATAC
* * *
60269986 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGT-GACTAATTTCGGGCTAAGCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAG-CT-ATATCCGGCTAAGCCCGAAGGCATTTG
*
60270050 TGCGAGTGACTAATT
64 TGCGAGTGACTAATA
* *
60270065 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATATCC-GGCTAAG-CCCGAAGGCATTT
*
60270128 GTGCGAGTTACT-ATAA
63 GTGCGAGTGACTAAT-A
* *
60270144 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATATCCGGCTAAACTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGCTAAGC-CCGAAGG
60270202 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
77 3 0.03
78 30 0.25
79 60 0.51
80 25 0.21
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGCTAAGCCCGAAGGCATTTGTG
CGAGTGACTAATA
Found at i:60279556 original size:49 final size:49
Alignment explanation
Indices: 60279499--60279858 Score: 569
Period size: 49 Copynumber: 7.4 Consensus size: 49
60279489 ATCAAGATTC
* * *
60279499 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
60279548 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
60279597 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
60279646 G-GAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
60279694 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
60279743 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
60279792 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
60279841 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
60279859 ATGTGGTAAA
Statistics
Matches: 297, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 45 0.15
49 252 0.85
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:60279744 original size:195 final size:197
Alignment explanation
Indices: 60279512--60279878 Score: 576
Period size: 195 Copynumber: 1.9 Consensus size: 197
60279502 AAAATGTATA
* * *
60279512 TATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATATATATATGTGATAAGGCC
*
60279577 TAATGGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGT
66 TAATGGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
60279642 GAATG-GAAA-GTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATA
131 GAATGTGAAAGGTATATATATATGTGATAAAGCCGAATGGCCGATGTGATGAATGTGAAAGTATA
60279705 TG
196 TG
* * *
60279707 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTATATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATATATATATGTGATAAGGCC
* * * *
60279772 TAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGAT
*
60279837 GAATGTGAAAGTGTATATATATATGTGGTAAAGCCGAATGGC
131 GAATGTGAAAG-GTATATATATATGTGATAAAGCCGAATGGC
60279879 TAATGTGAAT
Statistics
Matches: 154, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
195 124 0.81
196 4 0.03
198 26 0.17
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (197 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATATATATATGTGATAAGGCC
TAATGGCCGATGCGATGAATGCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGGTATATATATATGTGATAAAGCCGAATGGCCGATGTGATGAATGTGAAAGTATA
TG
Found at i:60279982 original size:37 final size:36
Alignment explanation
Indices: 60279927--60280013 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
60279917 AACTTGGAAA
60279927 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
60279965 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
60280002 TATGTCCGGGTA
1 TATGTCCGGGTA
60280014 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:60282599 original size:29 final size:29
Alignment explanation
Indices: 60282566--60282639 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
60282556 GTGACGAGAT
60282566 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
60282595 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
60282624 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60282640 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:60282655 original size:29 final size:29
Alignment explanation
Indices: 60282623--60282698 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
60282613 CTGGAAATAT
* *
60282623 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
60282652 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
60282681 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
60282699 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:60282666 original size:58 final size:58
Alignment explanation
Indices: 60282566--60282698 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
60282556 GTGACGAGAT
* * * * * *
60282566 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
60282624 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
60282682 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
60282699 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:60287542 original size:80 final size:80
Alignment explanation
Indices: 60287458--60287606 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
60287448 TATGGTAACC
* * * *
60287458 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
60287522 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
60287538 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
60287603 CCGG
66 CCGG
60287607 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:60287548 original size:40 final size:38
Alignment explanation
Indices: 60287499--60287606 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
60287489 ATCACGATTT
*
60287499 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
60287539 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
60287579 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
60287607 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:60290738 original size:93 final size:93
Alignment explanation
Indices: 60290626--60290797 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60290616 GCCCATAAGT
* *
60290626 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60290691 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
60290719 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60290784 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
60290798 CATCCTAGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60290793 original size:46 final size:46
Alignment explanation
Indices: 60290618--60290793 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60290608 TGTAACCCGC
* * *
60290618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
60290664 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
60290714 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
60290757 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60290794 TGCCCATCCT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:60293183 original size:30 final size:30
Alignment explanation
Indices: 60293139--60293227 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
60293129 CAAAGATAAC
60293139 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
60293168 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
60293198 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
60293228 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:60293187 original size:15 final size:15
Alignment explanation
Indices: 60293139--60293218 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
60293129 CAAAGATAAC
*
60293139 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
60293153 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
60293168 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
60293183 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
60293198 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
60293213 AAGAAA
1 AAGAAA
60293219 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:60293227 original size:15 final size:15
Alignment explanation
Indices: 60293150--60293227 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
60293140 AGAAAACCGA
60293150 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
60293165 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
60293179 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
60293194 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
60293210 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
60293225 ATA
1 ATA
60293228 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60296275 original size:93 final size:93
Alignment explanation
Indices: 60296163--60296334 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60296153 GCCCATAAGT
* *
60296163 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60296228 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
60296256 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60296321 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
60296335 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60296330 original size:46 final size:46
Alignment explanation
Indices: 60296155--60296330 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60296145 TGTAACCCGC
* * *
60296155 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
60296201 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
60296251 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
60296294 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60296331 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:60301058 original size:49 final size:51
Alignment explanation
Indices: 60300982--60301111 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 51
60300972 TGTGACTAGT
60300982 GACT-CAAGTGTGGTTA-TATGTGAAGGCCACTTTGAGAAG-AGATAGCTTG
1 GACTACAAGTGTGG-TACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * * * *
60301031 GTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGGTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* *
60301081 GACTACAAGGGTGGTACTATGTGCAGGCCAC
1 GACTACAAGTGTGGTACTATGTGAAGGCCAC
60301112 CGGGTATTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 2 0.03
49 33 0.48
50 9 0.13
51 25 0.36
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
Found at i:60306645 original size:14 final size:14
Alignment explanation
Indices: 60306615--60306644 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60306605 AAATTATGGC
60306615 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTT
60306629 TTTCTTTTTTT-TT
1 TTTCTTTTTTTCTT
60306642 TTT
1 TTT
60306645 TGATGTTTAA
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTCTT
Found at i:60318065 original size:18 final size:18
Alignment explanation
Indices: 60318042--60318085 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
60318032 TTGTAAAGTG
60318042 AATTTTGGTAAAAATGTC
1 AATTTTGGTAAAAATGTC
60318060 AATTTTGGTAAAAATGTC
1 AATTTTGGTAAAAATGTC
60318078 AATTTTGG
1 AATTTTGG
60318086 ATTGAATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (18 bp):
AATTTTGGTAAAAATGTC
Found at i:60318768 original size:7 final size:8
Alignment explanation
Indices: 60318752--60318777 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
60318742 GTGCTCCGAA
60318752 TTTTATTT
1 TTTTATTT
60318760 TTTTATTT
1 TTTTATTT
60318768 TTTTATTT
1 TTTTATTT
60318776 TT
1 TT
60318778 GTGTGTGAAC
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:60320976 original size:93 final size:93
Alignment explanation
Indices: 60320864--60321035 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60320854 GCCCATAAGT
* *
60320864 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60320929 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
60320957 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60321022 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
60321036 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60321031 original size:46 final size:46
Alignment explanation
Indices: 60320856--60321031 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60320846 TGTAACCCGC
* * *
60320856 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
60320902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
60320952 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
60320995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60321032 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:60323177 original size:29 final size:29
Alignment explanation
Indices: 60323138--60323225 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
60323128 CAAAGATAAC
*
60323138 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
60323167 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
60323196 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
60323226 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:60323196 original size:15 final size:15
Alignment explanation
Indices: 60323138--60323216 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
60323128 CAAAGATAAC
*
60323138 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
60323152 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
60323167 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
60323181 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
60323196 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
60323211 AAGAAA
1 AAGAAA
60323217 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:60323225 original size:15 final size:15
Alignment explanation
Indices: 60323149--60323225 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
60323139 AGAAAACCGA
60323149 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
60323164 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
60323178 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
60323192 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
60323208 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
60323223 ATA
1 ATA
60323226 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60326230 original size:45 final size:46
Alignment explanation
Indices: 60326166--60326340 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 46
60326156 TGTAACCCGC
*
60326166 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
60326211 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
60326261 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
60326304 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60326341 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:60326332 original size:93 final size:92
Alignment explanation
Indices: 60326174--60326344 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
60326164 GCCCATAAGT
*
60326174 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
60326239 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
60326266 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60326331 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
60326345 CAAATATCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 49 0.64
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60326359 original size:46 final size:45
Alignment explanation
Indices: 60326171--60326359 Score: 152
Period size: 46 Copynumber: 4.1 Consensus size: 45
60326161 CCCGCCCATA
* * ** * *
60326171 AGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
60326216 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
60326264 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
60326309 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
60326355 AGTGA
1 AGTGA
60326360 CATGTCACTT
Statistics
Matches: 113, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.04
45 31 0.27
46 38 0.34
47 31 0.27
48 5 0.04
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:60327827 original size:25 final size:25
Alignment explanation
Indices: 60327790--60327859 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
60327780 CTCTTTTAAT
* *
60327790 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
60327815 AATTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
60327840 AACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
60327860 AGCACCTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:60327917 original size:10 final size:10
Alignment explanation
Indices: 60327904--60327942 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
60327894 ATATGTGAAT
60327904 ATATCATGGC
1 ATATCATGGC
60327914 ATATCATGTGC
1 ATATCATG-GC
60327925 ATATCATGGC
1 ATATCATGGC
60327935 ATATCATG
1 ATATCATG
60327943 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:60327930 original size:21 final size:21
Alignment explanation
Indices: 60327904--60327943 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
60327894 ATATGTGAAT
60327904 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
60327925 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
60327944 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:60330242 original size:50 final size:49
Alignment explanation
Indices: 60330105--60330301 Score: 223
Period size: 50 Copynumber: 4.0 Consensus size: 49
60330095 GTAGCCGAAG
* * * *
60330105 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * *
60330154 TTATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AA
* * * * *
60330204 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATATGATCGAA
1 CTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA
* * *
60330254 GCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -CTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
60330302 TCACAATAGA
Statistics
Matches: 122, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
49 40 0.33
50 43 0.35
51 39 0.32
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCAGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:60330302 original size:101 final size:99
Alignment explanation
Indices: 60330119--60330302 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
60330109 CTGGTACGCA
* * * **
60330119 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATACGACCAACTATCAGGTACACATAGTAGCCTGCACTTA
*
60330184 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * *
60330218 TAGTAGCCTGCACTTAGTACTACACATATGATCGAAGCTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATACGA-CCAA-CTATCAGGTACACATAGTAGCCTGCACT
*
60330283 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
60330303 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.40
100 3 0.04
101 41 0.56
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCAACTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:60337927 original size:25 final size:25
Alignment explanation
Indices: 60337899--60337968 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
60337889 CTCTTTTAAT
* *
60337899 AACTGGAGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
60337924 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
60337949 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
60337969 AGCACTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:60338026 original size:10 final size:10
Alignment explanation
Indices: 60338013--60338051 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
60338003 ATATGTGAAT
60338013 ATATCATGGC
1 ATATCATGGC
60338023 ATATCATGTGC
1 ATATCATG-GC
60338034 ATATCATGGC
1 ATATCATGGC
60338044 ATATCATG
1 ATATCATG
60338052 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:60338039 original size:21 final size:21
Alignment explanation
Indices: 60338013--60338052 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
60338003 ATATGTGAAT
60338013 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
60338034 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
60338053 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:60341631 original size:24 final size:24
Alignment explanation
Indices: 60341604--60341666 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
60341594 CTTATTATGT
*
60341604 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
60341628 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
60341652 TCGCACACATAGTGC
1 TCGCACACATAGTGC
60341667 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:60342125 original size:2 final size:2
Alignment explanation
Indices: 60342118--60342143 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60342108 CATACTTATG
60342118 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
60342144 ACCGAATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60345426 original size:28 final size:28
Alignment explanation
Indices: 60345394--60345492 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
60345384 GCAATAAGCC
*
60345394 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
60345422 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
60345450 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
60345479 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60345493 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:60353090 original size:28 final size:28
Alignment explanation
Indices: 60353058--60353156 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
60353048 GCAATAAGCC
*
60353058 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
60353086 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
60353114 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
60353143 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60353157 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:60354801 original size:22 final size:24
Alignment explanation
Indices: 60354759--60354802 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
60354749 TAACTAAGTT
60354759 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
60354783 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
60354803 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:60355157 original size:29 final size:29
Alignment explanation
Indices: 60355125--60355184 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
60355115 CCCCTTTTTC
60355125 TTTCTTTTTCTTCTTTCTTTCTCCTTACT
1 TTTCTTTTTCTTCTTTCTTTCTCCTTACT
60355154 TTTCTTTTTCTTCTTTCTTTCTCCTTACT
1 TTTCTTTTTCTTCTTTCTTTCTCCTTACT
60355183 TT
1 TT
60355185 CGAAAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTCTTTTTCTTCTTTCTTTCTCCTTACT
Found at i:60356241 original size:40 final size:40
Alignment explanation
Indices: 60356186--60356262 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
60356176 TTTGGCTATA
60356186 TATATATGGCACTTAGTGTACGATTCGACATAGCTTCGGT
1 TATATATGGCACTTAGTGTACGATTCGACATAGCTTCGGT
*
60356226 TATATGTGGCACTTAGTGTACGATTCGACATAGCTTC
1 TATATATGGCACTTAGTGTACGATTCGACATAGCTTC
60356263 AGCTATGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTACGATTCGACATAGCTTCGGT
Found at i:60357387 original size:20 final size:20
Alignment explanation
Indices: 60357362--60357400 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
60357352 TCAGTGAAAA
60357362 TGGGCC-CACGGCCCATATTG
1 TGGGCCACAC-GCCCATATTG
60357382 TGGGCCTACACGCCCATAT
1 TGGGCC-ACACGCCCATAT
60357401 GGCCCACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.21
Consensus pattern (20 bp):
TGGGCCACACGCCCATATTG
Found at i:60368472 original size:40 final size:39
Alignment explanation
Indices: 60368428--60368553 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
60368418 GGGACTCAAC
*
60368428 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
60368468 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
60368508 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
60368548 CCGGAT
1 CCGGAT
60368554 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:60368512 original size:80 final size:80
Alignment explanation
Indices: 60368367--60368553 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
60368357 GCTACACATT
* * *
60368367 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
60368431 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
60368447 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
60368510 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
60368528 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
60368554 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:60373645 original size:93 final size:93
Alignment explanation
Indices: 60373532--60373703 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
60373522 CGCCCATAAG
* *
60373532 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
60373597 ACTAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
60373625 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60373690 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
60373704 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60373700 original size:46 final size:46
Alignment explanation
Indices: 60373525--60373700 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
60373515 TGTAACCCGC
* * *
60373525 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
60373571 CCATAAGTGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60373621 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60373664 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60373701 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60375658 original size:40 final size:40
Alignment explanation
Indices: 60375579--60375826 Score: 331
Period size: 40 Copynumber: 6.2 Consensus size: 40
60375569 TCTTTGGAAT
* ** * **
60375579 TTAG-CCGGATATAACCACAAGCACAATTGCCTTTAGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
60375618 TTAACCCTGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCC-GGATATAACAACTCGCACAAATGCCTTCGGGTC
*
60375658 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
60375698 TTAGCCCGAATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
60375738 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
60375778 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
60375818 TTAGCCCGG
1 TTAGCCCGG
60375827 GTATCATTCA
Statistics
Matches: 188, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 5 0.03
40 180 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:60377540 original size:31 final size:31
Alignment explanation
Indices: 60377502--60377564 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
60377492 ATAACTCTAA
60377502 ATCAAAACATCAAAAATGTCACACACGAATT
1 ATCAAAACATCAAAAATGTCACACACGAATT
*
60377533 ATCAAAACATCAAAAATTTCACACACGAATT
1 ATCAAAACATCAAAAATGTCACACACGAATT
60377564 A
1 A
60377565 ACACATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.21
Consensus pattern (31 bp):
ATCAAAACATCAAAAATGTCACACACGAATT
Found at i:60378067 original size:48 final size:48
Alignment explanation
Indices: 60377947--60378271 Score: 275
Period size: 48 Copynumber: 6.7 Consensus size: 48
60377937 AGGGTAAGAT
* * * * ** * *
60377947 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGTTTTCATATACTAG
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTAGCCTACATAT-CAAG
* * **
60377996 TGCCGATGCCATGTTCC-AAACATGGTTTTACACTAGCCTACATGTTGAG
1 -GCCGATGCCATG-TCCTAAACATGGTCTTACACTAGCCTACATATCAAG
* * *
60378045 GCCGATGCCATGTCCTAGACATGGTCTTACACTAACTCT-CATATCAAT
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTAGC-CTACATATCAAG
* *
60378093 GTCGATGCCATGTTCTAAACATGGTCTTACACTAG-CTCACATATCAAG
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTAGCCT-ACATATCAAG
* * *
60378141 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATATCAAT
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTAGC-CTACATATCAAG
* * * * *
60378189 GCCAATGTCATGTTCC-AAAAATGGTCTTACACT-GGCTCACATATCGAG
1 GCCGATGCCATG-TCCTAAACATGGTCTTACACTAGCCT-ACATATCAAG
* * * *
60378237 GCCAATGCCATGTCCCAGACATGGTCTTACCCTAG
1 GCCGATGCCATGTCCTAAACATGGTCTTACACTAG
60378272 ACATGGTCTT
Statistics
Matches: 225, Mismatches: 38, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
46 4 0.02
47 7 0.03
48 169 0.75
49 8 0.04
50 34 0.15
51 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCTAAACATGGTCTTACACTAGCCTACATATCAAG
Found at i:60378143 original size:96 final size:96
Alignment explanation
Indices: 60377947--60378271 Score: 445
Period size: 96 Copynumber: 3.4 Consensus size: 96
60377937 AGGGTAAGAT
* * * * *
60377947 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGTTTTCATATACTAGTGCCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-C-AATGCCGATGCCATGTTC
* * *
60378012 CAAACATGGTTTTACACTAGC-CTACATGTTGAG
64 CAAACATGGTCTTACACTAGCTC-ACATATCGAG
* * * *
60378045 GCCGATGCCATGTCCTAGACATGGTCTTACACTAACTCTCATATCAATGTCGATGCCATGTTCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCA
*
60378110 AACATGGTCTTACACTAGCTCACATATCAAG
66 AACATGGTCTTACACTAGCTCACATATCGAG
* *
60378141 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGTCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCA
* *
60378206 AAAATGGTCTTACACTGGCTCACATATCGAG
66 AACATGGTCTTACACTAGCTCACATATCGAG
* *
60378237 GCCAATGCCATGTCCCAGACATGGTCTTACCCTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG
60378272 ACATGGTCTT
Statistics
Matches: 202, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
96 162 0.80
97 2 0.01
98 38 0.19
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCACATATCGAG
Found at i:60378213 original size:144 final size:146
Alignment explanation
Indices: 60377955--60378271 Score: 336
Period size: 144 Copynumber: 2.2 Consensus size: 146
60377945 ATGCCGATGT
* * * ** * *
60377955 CATGTCCCAGACATGGTCTTACACTGGTTTTCATATACTAGTGCCGATGCCATGTTCCAAACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATACAAGTGCCGATGCCATGTCCCAAACATG
* * ** * * * *
60378020 GTTTTACACTAGCCTACATGTTGAGGCCGATGCCATGTCCTAGACATGGTCTTACACTAACTCTC
66 GTCTTACACTAGCCTACATATCAAGGCCAATGCCATGTCCTAAAAATGGTCTTACACTAACTCAC
* * *
60378085 ATATCAATGTCGATGC
131 ATATCAAGGCCAATGC
* * *
60378101 CATGTTCTAAACATGGTCTTACACTAGCTCACATAT-CAAG-GCCGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATACAAGTGCCGATGCCATGTCCCAAACATG
* * **
60378164 GTCTTACACTAGCTCT-CATATCAATGCCAATGTCATGTTCC-AAAAATGGTCTTACACTGGCTC
66 GTCTTACACTAGC-CTACATATCAAGGCCAATGCCATG-TCCTAAAAATGGTCTTACACTAACTC
*
60378227 ACATATCGAGGCCAATGC
129 ACATATCAAGGCCAATGC
* *
60378245 CATGTCCCAGACATGGTCTTACCCTAG
1 CATGTCCCAAACATGGTCTTACACTAG
60378272 ACATGGTCTT
Statistics
Matches: 139, Mismatches: 30, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
144 102 0.73
145 8 0.06
146 29 0.21
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (146 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATATACAAGTGCCGATGCCATGTCCCAAACATG
GTCTTACACTAGCCTACATATCAAGGCCAATGCCATGTCCTAAAAATGGTCTTACACTAACTCAC
ATATCAAGGCCAATGC
Found at i:60378275 original size:17 final size:17
Alignment explanation
Indices: 60378253--60378288 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
60378243 GCCATGTCCC
*
60378253 AGACATGGTCTTACCCT
1 AGACATGGTCTTACACT
60378270 AGACATGGTCTTACACT
1 AGACATGGTCTTACACT
60378287 AG
1 AG
60378289 CTCTCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (17 bp):
AGACATGGTCTTACACT
Found at i:60378313 original size:65 final size:65
Alignment explanation
Indices: 60378209--60378331 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 65
60378199 TGTTCCAAAA
* * * *
60378209 ATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACCCTAGAC
1 ATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCAAACATGATCTTACCCTAGAC
* * ** *
60378274 ATGGTCTTACACTAGCTCTCATATCAATGCGGATGCCATGTTCCAAACATGATCTTAC
1 ATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCAAACATGATCTTAC
60378332 ACTGGCTTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 49 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (65 bp):
ATGGTCTTACACTAGCTCACATATCAAGGCCAATGCCATGTCCCAAACATGATCTTACCCTAGAC
Found at i:60378345 original size:48 final size:48
Alignment explanation
Indices: 60378272--60378392 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
60378262 CTTACCCTAG
* *
60378272 ACATGGTCTTACACTAGCTCTCATATCAATGCGGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATATCAAGGCGGATGCCATGTCCCAA
* * * * *
60378320 ACATGATCTTACACTGGCT-TACATATCGAGGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTAGCTCT-CATATCAAGGCGGATGCCATGTCCCAA
*
60378368 ACATGGTCTTACACTAGCTCCCATA
1 ACATGGTCTTACACTAGCTCTCATA
60378393 ACCCTAGTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
47 1 0.02
48 60 0.98
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATATCAAGGCGGATGCCATGTCCCAA
Found at i:60378358 original size:113 final size:113
Alignment explanation
Indices: 60378157--60378384 Score: 375
Period size: 113 Copynumber: 2.0 Consensus size: 113
60378147 GCCATGTCCC
* *
60378157 AGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGTCATGTTCCAAAAATGGTCTTACACT
1 AGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCAAAAATGATCTTACACT
*
60378222 GGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACCCT
66 GGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACT
** *
60378270 AGACATGGTCTTACACTAGCTCTCATATCAATGCGGATGCCATGTTCCAAACATGATCTTACACT
1 AGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCAAAAATGATCTTACACT
* **
60378335 GGCTTACATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACT
66 GGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACT
60378383 AG
1 AG
60378385 CTCCCATAAC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (113 bp):
AGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCAAAAATGATCTTACACT
GGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACT
Found at i:60380830 original size:14 final size:14
Alignment explanation
Indices: 60380811--60380839 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60380801 TAAAATTGCA
60380811 AATTCATGCAATTT
1 AATTCATGCAATTT
60380825 AATTCATGCAATTT
1 AATTCATGCAATTT
60380839 A
1 A
60380840 GTACAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTCATGCAATTT
Found at i:60383213 original size:24 final size:25
Alignment explanation
Indices: 60383180--60383277 Score: 157
Period size: 24 Copynumber: 4.0 Consensus size: 25
60383170 AAGGTCGTCA
60383180 GGAGAAGATTTAGGAGCTGAT-AAG
1 GGAGAAGATTTAGGAGCTGATCAAG
*
60383204 GGAGAGGATTTAGGAGCTGAT-AAG
1 GGAGAAGATTTAGGAGCTGATCAAG
*
60383228 GGAGAGGATTTAGGAGCTGATCAA-
1 GGAGAAGATTTAGGAGCTGATCAAG
60383252 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGATCAAG
60383277 G
1 G
60383278 AGCAGGAGTT
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
24 67 0.96
25 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.20
Consensus pattern (25 bp):
GGAGAAGATTTAGGAGCTGATCAAG
Found at i:60384974 original size:33 final size:34
Alignment explanation
Indices: 60384896--60384977 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 34
60384886 CTATGGGCCA
60384896 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
* * ** *
60384930 TAATGTAATCTGAA-AA-GGGCTCTGGCCTAGTAT
1 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-T
60384963 TACTGTTATCTGAAT
1 TACTGTTATCTGAAT
60384978 GGGCTTAGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 12 0.31
33 15 0.38
34 12 0.31
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (34 bp):
TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
Found at i:60386554 original size:30 final size:30
Alignment explanation
Indices: 60386520--60386580 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60386510 TCCTTAACTC
60386520 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60386550 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60386580 A
1 A
60386581 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60388125 original size:19 final size:19
Alignment explanation
Indices: 60388102--60388142 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
60388092 TTGAATTTGA
60388102 ATTTTT-TATTATTTAAA-T
1 ATTTTTATATT-TTTAAATT
60388120 ATTTTTATATTTTTAAATT
1 ATTTTTATATTTTTAAATT
60388139 ATTT
1 ATTT
60388143 ATTGACGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTATATTTTTAAATT
Found at i:60389079 original size:2 final size:2
Alignment explanation
Indices: 60389074--60389102 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
60389064 ACGCTAAATT
60389074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60389103 CACCCATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60394095 original size:3 final size:3
Alignment explanation
Indices: 60394087--60394144 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
60394077 AACTAAAAGA
60394087 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60394135 AAT AAT AAT A
1 AAT AAT AAT A
60394145 GCAGAAATTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60396159 original size:16 final size:18
Alignment explanation
Indices: 60396133--60396165 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60396123 TTAGCTTAAA
60396133 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
60396150 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
60396166 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:60402098 original size:93 final size:93
Alignment explanation
Indices: 60401992--60402163 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
60401982 GCCCATAAGT
* * * * *
60401992 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
60402057 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
60402085 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
60402150 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
60402164 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:60402159 original size:46 final size:46
Alignment explanation
Indices: 60401984--60402159 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
60401974 TGTAACCCGC
* * * *
60401984 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
60402030 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
60402076 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
60402123 CCATAAATGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60402160 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 68 0.63
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:60409015 original size:25 final size:24
Alignment explanation
Indices: 60408987--60409052 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
60408977 CCTTTACATA
* *
60408987 TATGCTCATATGAGCTTTGAATCGG
1 TATGCTCATACGAGCTGT-AATCGG
* *
60409012 TATGCTCTTACAAGCTGTAATCGG
1 TATGCTCATACGAGCTGTAATCGG
*
60409036 TAAGCTCATACGAGCTG
1 TATGCTCATACGAGCTG
60409053 AGTCACAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 20 0.59
25 14 0.41
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (24 bp):
TATGCTCATACGAGCTGTAATCGG
Found at i:60409066 original size:25 final size:25
Alignment explanation
Indices: 60409035--60409128 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
60409025 GCTGTAATCG
*
60409035 GTAAGCTCATACGAGCTGAGTCACA
1 GTAAGCTCATACGAGCTGAGTAACA
* * *
60409060 GTAAGCTCATGCGAGCTAAATAAC-
1 GTAAGCTCATACGAGCTGAGTAACA
* *
60409084 GATAAGCTCATATGAGTTGAG-AATCA
1 G-TAAGCTCATACGAGCTGAGTAA-CA
60409110 GTAAGCTC-TCACGAGCTGA
1 GTAAGCTCAT-ACGAGCTGA
60409129 AGTTGGTAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
24 4 0.07
25 49 0.91
26 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAGTAACA
Found at i:60412834 original size:6 final size:6
Alignment explanation
Indices: 60412804--60412934 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
60412794 AAGAAACATT
* * *
60412804 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
60412853 ATCAGA ATCAGA ATCAGA ATCAGA ATTAGGTG AT-AGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
60412902 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
60412935 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 6 0.06
6 81 0.81
7 9 0.09
8 4 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:60412862 original size:31 final size:31
Alignment explanation
Indices: 60412825--60412934 Score: 121
Period size: 31 Copynumber: 3.4 Consensus size: 31
60412815 AATCAAAATG
60412825 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
60412856 AGAATCAGAATCAGAATCAGAATTAGGTGATAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* *
60412893 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
60412924 AAAATCAGAAT
1 AGAATCAGAAT
60412935 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
31 38 0.58
37 28 0.42
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:60412866 original size:37 final size:37
Alignment explanation
Indices: 60412813--60412912 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
60412803 TATCAGAACT
* *
60412813 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
60412850 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
60412887 AGAATTAGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAGAATCAG
60412913 GTAACAGAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:60412934 original size:37 final size:37
Alignment explanation
Indices: 60412813--60412934 Score: 139
Period size: 37 Copynumber: 3.5 Consensus size: 37
60412803 TATCAGAACT
* *
60412813 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
60412850 AGAATCAGAATCAGAATCAGAATCAGAATTAGGT---
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
60412884 -G-AT-AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
60412918 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
60412935 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
31 25 0.35
32 2 0.03
33 1 0.01
35 1 0.01
36 2 0.03
37 40 0.56
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:60413451 original size:27 final size:27
Alignment explanation
Indices: 60413421--60413749 Score: 453
Period size: 27 Copynumber: 12.2 Consensus size: 27
60413411 AACACCCTAG
** *
60413421 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
*
60413448 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * *
60413475 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
*
60413502 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* * * *
60413529 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
60413556 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
*
60413583 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
60413610 GGGTAAAACAGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
60413637 GGGTAAAACAATAA-TCTTGTAAATCGA
1 GGGTAAAACAGTAATTC-TATAAATCGA
60413664 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
60413691 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTATAAATCGA
* *
60413718 GGGTAAAACAGTAATTCTGTAAATCGG
1 GGGTAAAACAGTAATTCTATAAATCGA
60413745 GGGTA
1 GGGTA
60413750 CTTTGGTAAT
Statistics
Matches: 271, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 2 0.01
27 267 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTATAAATCGA
Found at i:60413556 original size:81 final size:81
Alignment explanation
Indices: 60413421--60413749 Score: 523
Period size: 81 Copynumber: 4.1 Consensus size: 81
60413411 AACACCCTAG
* * *
60413421 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
60413486 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * *
60413502 GGGTAAAACGGTAATTCTATAAATCGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
*
60413567 TAATTTTATAAATCGA
66 TAATTTTGTAAATCGA
* *
60413583 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTGAGGGTAAAACAA
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
*
60413648 TAATCTTGTAAATCGA
66 TAATTTTGTAAATCGA
* *
60413664 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
* *
60413729 TAATTCTGTAAATCGG
66 TAATTTTGTAAATCGA
60413745 GGGTA
1 GGGTA
60413750 CTTTGGTAAT
Statistics
Matches: 227, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 227 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:60413775 original size:27 final size:26
Alignment explanation
Indices: 60413739--60413899 Score: 153
Period size: 27 Copynumber: 6.0 Consensus size: 26
60413729 TAATTCTGTA
* *
60413739 AATCGGGGGTACTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
** *
60413765 AAGTCGAGGGTATTTCAGTAATTTCAC
1 AA-TCGAGGGTATTTTGGTAATTTTAC
60413792 AAATC-AGAGGTATTTTGGTAATTTTAC
1 -AATCGAG-GGTATTTTGGTAATTTTAC
* *
60413819 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGA-GGGTATTTTGGTAATTTTAC
* * * *
60413846 AAACTAGGGGTATTTTAGTAAATTTAC
1 AATCGA-GGGTATTTTGGTAATTTTAC
*
60413873 AGGTCGAGGGTATTTTGGTAATTTTAC
1 A-ATCGAGGGTATTTTGGTAATTTTAC
60413900 CCTAAAGGGG
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.06
27 101 0.89
28 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:60413813 original size:81 final size:81
Alignment explanation
Indices: 60413744--60413899 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
60413734 CTGTAAATCG
*
60413744 GGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAGT-AATTTCACAAATC-AGAGGTATT
1 GGGGTACTTTGGTAATTTTACAA-ACGAGGGGTATTTCAGTAAATTT-ACAAATCGAG-GGTATT
60413806 TTGGTAATTTTACAAACTA
63 TTGGTAATTTTACAAACTA
* * * **
60413825 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAAATTTACAGGTCGAGGGTATTTTG
1 GGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTCAGTAAATTTACAAATCGAGGGTATTTTG
60413890 GTAATTTTAC
66 GTAATTTTAC
60413900 CCTAAAGGGG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
80 2 0.03
81 57 0.86
82 7 0.11
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (81 bp):
GGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTCAGTAAATTTACAAATCGAGGGTATTTTG
GTAATTTTACAAACTA
Found at i:60413884 original size:54 final size:53
Alignment explanation
Indices: 60413738--60413899 Score: 182
Period size: 54 Copynumber: 3.0 Consensus size: 53
60413728 GTAATTCTGT
* * ** *
60413738 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTAC-AGTCGAGGGTATTTTGGTAATTTTAC
* ** *
60413792 AAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTACAGTCGA-GGGTATTTTGGTAATTTTAC
* *
60413846 AAA-CTAGGGGTATTTTAGTAAATTTACAGGTCGAGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTACA-GTCGAGGGTATTTTGGTAATTTTAC
60413900 CCTAAAGGGG
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 4 0.04
54 84 0.93
55 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (53 bp):
AAATCAGGGGTATTTTGGTAATTTTACAGTCGAGGGTATTTTGGTAATTTTAC
Found at i:60413927 original size:27 final size:27
Alignment explanation
Indices: 60413890--60413959 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
60413880 GGGTATTTTG
*
60413890 GTAATTTTACCCTA-AAGGGGCATTTCA
1 GTAATTCTACCCTACAA-GGGCATTTCA
* *
60413917 GTACTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
60413944 GTAATTCTAGCCTACA
1 GTAATTCTACCCTACA
60413960 GATACGAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:60418481 original size:47 final size:47
Alignment explanation
Indices: 60418107--60418446 Score: 644
Period size: 47 Copynumber: 7.2 Consensus size: 47
60418097 TTTAGGATTT
60418107 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
60418154 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
60418201 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
60418248 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
60418295 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
60418342 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
**
60418389 AATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
60418436 AATGTGATGAA
1 AATGTGATGAA
60418447 CGCGGAAGTG
Statistics
Matches: 287, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 287 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:60418524 original size:46 final size:46
Alignment explanation
Indices: 60418470--60418596 Score: 227
Period size: 46 Copynumber: 2.8 Consensus size: 46
60418460 ATATGTGGCG
*
60418470 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
*
60418516 AAGTCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
*
60418562 AAGCCGAATGGCTAATGCGAAACATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
60418597 TGTATATATA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.23
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:60418606 original size:2 final size:2
Alignment explanation
Indices: 60418599--60418625 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60418589 ATGAGATGTG
60418599 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
60418626 TGTGGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60419676 original size:38 final size:38
Alignment explanation
Indices: 60419632--60419711 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
60419622 GGGGTGTTAC
** *
60419632 ATATATTACCAGCATGAAGCCTGCGGGATTTAACAC-GG
1 ATATATTACCAGCACAAAGCCTGCGGGACTTAAC-CTGG
*
60419670 ATATATTACCAGCACAAAGTCTGCGGGACTTAACCTGG
1 ATATATTACCAGCACAAAGCCTGCGGGACTTAACCTGG
60419708 ATAT
1 ATAT
60419712 GTATCGAGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (38 bp):
ATATATTACCAGCACAAAGCCTGCGGGACTTAACCTGG
Found at i:60427464 original size:39 final size:40
Alignment explanation
Indices: 60427365--60427570 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
60427355 CATTGGAATG
* * *
60427365 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
*
60427405 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTATT
* * **
60427445 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * * *
60427484 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* ** * * * *
60427524 ATAACCGGGCTTCGTCCC-AAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
60427563 ATATCCGG
1 ATATCCGG
60427571 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
39 58 0.42
40 80 0.58
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
Found at i:60427569 original size:79 final size:79
Alignment explanation
Indices: 60427369--60427574 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 79
60427359 GGAATGATAT
* * *
60427369 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
***
60427434 TGCGAGTTGTTATA
66 TGCGAGTCACTATA
* * * ** *
60427448 TCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTC
60427512 GTGCGAGTCACTATAA
65 GTGCGAGTCACTAT-A
** * * *
60427528 CCGGGCTTCGTCCC-AAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAA
60427575 ATTCCGAAGG
Statistics
Matches: 103, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
78 6 0.06
79 83 0.81
80 14 0.14
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
TGCGAGTCACTATA
Found at i:60435153 original size:39 final size:39
Alignment explanation
Indices: 60435095--60435262 Score: 160
Period size: 40 Copynumber: 4.3 Consensus size: 39
60435085 CATTGGAATG
* * * *
60435095 ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTACT
* **
60435134 ATATCCGGGCTAAGACCCGAAGGCATTCGGGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTTACT
* * * *
60435174 ATATCCAGG-TAAGA-CCAAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTACT
* * *
60435212 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTACT
*
60435252 ATAACCGGGCT
1 ATATCCGGGCT
60435263 TCTTCCGAAG
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
38 22 0.21
39 38 0.37
40 42 0.41
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTACT
Found at i:60437794 original size:2 final size:2
Alignment explanation
Indices: 60437776--60437831 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
60437766 TATTGGCCTA
* *
60437776 AT AT AT GT AT AT GT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60437817 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
60437832 ATACACAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60438283 original size:37 final size:38
Alignment explanation
Indices: 60438188--60438305 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
60438178 TTTAGGCCCG
* *
60438188 GATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCA
1 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCA
* * * *
60438226 GATATATTACTAGCATGAAGCCTACAGGATTTAACCCA
1 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCA
* *
60438264 GATA-ATTACCAGCACGAAGCCTGCGGGACTTAACCCG
1 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCA
60438301 GATAT
1 GATAT
60438306 GTATCGAGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
37 31 0.46
38 36 0.54
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCA
Done.