Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 284 of 310
Found at i:93459504 original size:40 final size:40
Alignment explanation
Indices: 93459453--93459648 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
93459443 GGATATAGCT
* * *
93459453 ACTCGCTCAAATGTCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* *
93459493 ACTGGCACAAATGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * *
93459533 ACTCCCACAAATGCCTTCGAGACTTAGCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* *
93459573 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAATA
* *
93459613 ACTAGCACAAATGCCTTCGGGACTTAGCTCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
93459649 CATCCGAATA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 134 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:93467362 original size:39 final size:40
Alignment explanation
Indices: 93467308--93467445 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
93467298 AAACCAAGTA
** *
93467308 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
93467347 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
93467387 CCTTCGGGACTTAGCCCGGATTTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
93467427 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93467446 TTATCATCCG
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.14
40 78 0.86
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93475826 original size:12 final size:12
Alignment explanation
Indices: 93475809--93475835 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93475799 ATTCCGAAGT
93475809 ATATATATATAC
1 ATATATATATAC
93475821 ATATATATATAC
1 ATATATATATAC
93475833 ATA
1 ATA
93475836 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:93476350 original size:27 final size:27
Alignment explanation
Indices: 93476319--93476496 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
93476309 TAAATTGTAC
93476319 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
93476346 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
93476372 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
93476400 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
93476428 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
93476455 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
93476482 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93476497 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:93476433 original size:82 final size:81
Alignment explanation
Indices: 93476320--93476475 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
93476310 AAATTGTACA
* *
93476320 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
93476384 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
93476401 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
93476466 TGCGAGTTGA
65 TGCGAATTGA
93476476 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:93476487 original size:82 final size:81
Alignment explanation
Indices: 93476316--93476496 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
93476306 GATTAAATTG
* *
93476316 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
93476381 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
93476397 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
93476461 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
93476479 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
93476497 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:93485164 original size:40 final size:40
Alignment explanation
Indices: 93485075--93485338 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
93485065 TTGAATGATG
* *
93485075 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
93485114 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
93485154 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
93485193 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
93485233 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
93485273 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
93485314 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93485339 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:93485356 original size:120 final size:118
Alignment explanation
Indices: 93485075--93485371 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
93485065 TTGAATGATG
* *
93485075 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
93485135 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
93485193 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
93485258 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
93485314 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
93485372 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:93488573 original size:94 final size:94
Alignment explanation
Indices: 93488405--93488670 Score: 269
Period size: 94 Copynumber: 2.8 Consensus size: 94
93488395 CCATTTGTGT
* * *
93488405 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAGGACCATGTC
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
93488470 TGGGACATGGCATCGACATTGAGACAAGA
66 TGGGACATGGCATCGACATTGAGACAAGA
* *
93488499 GCTAGTGTAAGACATGTATGGGACATGCATTGGCCTCGA-GATGTA-AGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCAC-ATGATG-AGAGCCAGTGTAAGACCATG
* ** * * *
93488562 TTTGGTTCATGGCATCAACCA-TGAG--ATGT
64 TCTGGGACATGGCATCGA-CATTGAGACAAGA
* *
93488591 G-TCAGTGTAAGACCATGTTTGGGACATGGCATC-GACACGGAT-ATGTAAGAGCCAGTGTAAGA
1 GCT-AGTGTAAGA-CATGTATGGGACAT-GCATCGGCCAC--ATGATG--AGAGCCAGTGTAAGA
93488653 CCATGTCTGGGACATGGC
59 CCATGTCTGGGACATGGC
93488671 GTCAGCCTTA
Statistics
Matches: 143, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
91 1 0.01
92 12 0.08
93 16 0.11
94 81 0.57
95 5 0.03
96 28 0.20
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTATGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATTGAGACAAGA
Found at i:93488669 original size:96 final size:90
Alignment explanation
Indices: 93488408--93488772 Score: 301
Period size: 96 Copynumber: 3.9 Consensus size: 90
93488398 TTTGTGTGCT
* * *
93488408 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCCAGTGTAGGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACC-GA-TATGTAGAGCCAGTGTAAGACCATGTCTG
* *
93488472 GGACATGGCATCGA-CATTGAGACAAGAG-C
64 GGACATGGCATCAACCA-TGAG--ATG-GTC
* * * * *
93488501 TAGTGTAAGACATGTATGGGACATGCATTGGCCTCGAGATGTA-AGCCAGTGTAAGACCATGTTT
1 -AGTGTAAGACATGTCTGGGACATGCA-TCGAC-CGATATGTAGAGCCAGTGTAAGACCATGTCT
**
93488565 GGTTCATGGCATCAACCATGAGATGTGTC
63 GGGACATGGCATCAACCATGAGATG-GTC
*
93488594 AGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-C-GATATGT-AGAGCCAGTGTAAGACCATGT
* * *
93488659 CTGGGACATGGCGTCAGCCTTAATCGCGATGGTC
61 CTGGGACATGGCATCAACC---AT-GAGATGGTC
* * * *
93488693 AATGTAAGACCATGTCTGGGACATGGCTTCGA-C-TTGATGTATGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCGAT-ATGTA-GAGCCAGTGTAAGACCATGTC
93488756 TGGGACATGGCATCAAC
62 TGGGACATGGCATCAAC
93488773 ATCCTACCCT
Statistics
Matches: 225, Mismatches: 30, Indels: 30
0.79 0.11 0.11
Matches are distributed among these distances:
92 12 0.05
93 18 0.08
94 72 0.32
95 10 0.04
96 73 0.32
97 1 0.00
99 34 0.15
100 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCGATATGTAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCAACCATGAGATGGTC
Found at i:93488708 original size:49 final size:47
Alignment explanation
Indices: 93488596--93488766 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 47
93488586 GATGTGTCAG
* * ** * * *
93488596 TGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCG--ACTTA-ATGGATGAGCCAA
* *
93488646 TGTAAGACCATGTCTGGGACATGGCGTCAGCCTTAATCGCGATG-GTCAA
1 TGTAAGACCATGTCTGGGACATGGCGTC-GACTTAAT-G-GATGAGCCAA
* * * *
93488695 TGTAAGACCATGTCTGGGACATGGCTTCGACTTGATGTATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGACTTAATGGATGAGCCAA
*
93488742 TGTAAGACCATGTTTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
93488767 ATCAACATCC
Statistics
Matches: 101, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
46 3 0.03
47 28 0.28
48 8 0.08
49 33 0.33
50 28 0.28
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCGTCGACTTAATGGATGAGCCAA
Found at i:93492277 original size:29 final size:29
Alignment explanation
Indices: 93492245--93492333 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
93492235 CTACCTAACA
93492245 GGCCATATAAATGTGATTTGGGCCTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
* *
93492274 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
* * *
93492303 GGCCATATGAATATGA-TTGGGCTTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
93492331 GGC
1 GGC
93492334 TAGATACAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 14 0.26
29 39 0.74
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
GGCCATATAAATGTGATTTGGGCCTAATG
Found at i:93500671 original size:29 final size:29
Alignment explanation
Indices: 93500629--93500694 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
93500619 AGACTATGAC
93500629 TGTGATTTGGGCCTAATGGGCCATACGAA
1 TGTGATTTGGGCCTAATGGGCCATACGAA
* *
93500658 TGTGATTTGGGCCTAATGGGCTATATGAA
1 TGTGATTTGGGCCTAATGGGCCATACGAA
*
93500687 TGAGATTT
1 TGTGATTT
93500695 CCTCGTAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (29 bp):
TGTGATTTGGGCCTAATGGGCCATACGAA
Found at i:93504071 original size:27 final size:26
Alignment explanation
Indices: 93504054--93504123 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
93504044 ATATTAAGTC
93504054 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
93504081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
93504109 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
93504124 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:93504117 original size:28 final size:28
Alignment explanation
Indices: 93504054--93504151 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
93504044 ATATTAAGTC
*
93504054 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
93504081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
93504109 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
93504138 CGCACACTTAGTGC
1 CGCACACTTAGTGC
93504152 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:93504194 original size:42 final size:42
Alignment explanation
Indices: 93504130--93504236 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
93504120 TGCTGTACAA
*
93504130 TTTAAACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
1 TTTATACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
93504172 TTTATACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
1 TTTATACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
93504214 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
93504237 GAGATCAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
Found at i:93518567 original size:40 final size:41
Alignment explanation
Indices: 93518483--93518588 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
93518473 TACTAGCTCG
* * *
93518483 TAGCCTGCGGGTCTCT-AGCCCAGATAGCATTCCAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* * *
93518523 -AGCCTGTGGGTCTTTAAGCCTGGATAACATTCCAGCA-TA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
93518562 TAGCCTGCGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
93518589 CAATTCCTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 14 0.25
40 42 0.75
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (41 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
Found at i:93520431 original size:26 final size:26
Alignment explanation
Indices: 93520391--93520442 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
93520381 ACATGCATTT
* *
93520391 ACACATATTAGAAACTTAGAATATAA
1 ACACATATAAGAAACATAGAATATAA
*
93520417 ACACATATAATAAACATAGAATATAA
1 ACACATATAAGAAACATAGAATATAA
93520443 CGGTTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.25
Consensus pattern (26 bp):
ACACATATAAGAAACATAGAATATAA
Found at i:93529446 original size:39 final size:40
Alignment explanation
Indices: 93529394--93529478 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
93529384 CGGTATAATA
* * * *
93529394 CCAGCTCGTAGCCTGCGGGTCTCTA-GCCCGAATAGCATT
1 CCAGCACGAAGCCTGAGGGTCTCTATGCCCGAATAACATT
* *
93529433 CTAGCACGAAGCCTGAGGGTCTTTATGCCCGAATAACATT
1 CCAGCACGAAGCCTGAGGGTCTCTATGCCCGAATAACATT
93529473 CCAGCA
1 CCAGCA
93529479 TATACCCTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 20 0.53
40 18 0.47
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (40 bp):
CCAGCACGAAGCCTGAGGGTCTCTATGCCCGAATAACATT
Found at i:93529493 original size:40 final size:39
Alignment explanation
Indices: 93529405--93529502 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 39
93529395 CAGCTCGTAG
* * * *
93529405 CCTGCGGGTCTCTAGCCCGAATAGCATTCTAGCACGAAG
1 CCTGCGGGTCTTTAGCCCGAATAACATTCCAGCACGAAC
* *
93529444 CCTGAGGGTCTTTATGCCCGAATAACATTCCAGCA-TATAC
1 CCTGCGGGTCTTTA-GCCCGAATAACATTCCAGCACGA-AC
93529484 CCTGCGGGTCTTTAAGCCC
1 CCTGCGGGTCTTT-AGCCC
93529503 AGAGACAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
39 13 0.27
40 35 0.71
41 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTGCGGGTCTTTAGCCCGAATAACATTCCAGCACGAAC
Found at i:93533650 original size:20 final size:18
Alignment explanation
Indices: 93533620--93533662 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
93533610 TTTGTAAAGT
*
93533620 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
93533639 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
93533657 TTGTGA
1 TTGTGA
93533663 GTTTCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:93533839 original size:26 final size:26
Alignment explanation
Indices: 93533808--93533859 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
93533798 GAATTAAAGG
93533808 ATGTTTTAATTAATGTAATGATTAAA
1 ATGTTTTAATTAATGTAATGATTAAA
93533834 ATGTTTTAATTAATGTAATGATTAAA
1 ATGTTTTAATTAATGTAATGATTAAA
93533860 TGAGTGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (26 bp):
ATGTTTTAATTAATGTAATGATTAAA
Found at i:93534491 original size:49 final size:49
Alignment explanation
Indices: 93534341--93534610 Score: 259
Period size: 49 Copynumber: 5.6 Consensus size: 49
93534331 TATATGTGCT
* * * * *
93534341 AGTGTAAGACATGTATGGGACAT-GCATTGGCCAT-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATATATGAGAGCC
** * * * *
93534387 AGTGTAAGAAATGTCTGGGACAT-GCATCGGCCTCGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATATATG-AGAGCC
* * *
93534435 AGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATATATGAGAGCC
* * * **
93534484 AGTGTAAGACCTGTGTGGGACATGGCATCGGCCTTGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATATATGAGAGCC
*
93534533 AGTGTAAGACCTGTCTGGGACATGGAATCGA-CTTAGATATAT--GAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTT-GATATATGAGAGCC
* *
93534580 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
93534611 GCATCGTACC
Statistics
Matches: 184, Mismatches: 33, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
46 29 0.16
47 14 0.08
48 48 0.26
49 93 0.51
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGATATATGAGAGCC
Found at i:93534543 original size:98 final size:98
Alignment explanation
Indices: 93534378--93534612 Score: 316
Period size: 98 Copynumber: 2.4 Consensus size: 98
93534368 TGGCCATATT
** *
93534378 ATGAGAGCCAGTGTAAGAAATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAAGCTAGTGTAA
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATGAAAGCTAGTGTAA
*
93534442 GACCTGTCTGGGACATGGCATCAACATT-GATAG
66 GACCTGTCTGGGACATGGAATCAAC-TTAGATAG
* * * *
93534475 ATGAGAGCCAGTGTAAGACCTGTGTGGGACATGGCATCGGCCTTGATATATGAAAGTTAGTGTAA
1 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATGAAAGCTAGTGTAA
* *
93534540 GACCTGTCTGGGACATGGAATCGACTTAGATAT
66 GACCTGTCTGGGACATGGAATCAACTTAGATAG
* *
93534573 AT--GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 ATGAGAGCCAGTGTAAGACC-TGTCTGGGACATGGCATCGGC
93534613 ATCGTACCCT
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
96 16 0.13
97 50 0.41
98 57 0.46
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (98 bp):
ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATGAAAGCTAGTGTAA
GACCTGTCTGGGACATGGAATCAACTTAGATAG
Found at i:93546651 original size:15 final size:15
Alignment explanation
Indices: 93546631--93546685 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
93546621 GTATCGTAAC
93546631 TTGGATTTCTCTATT
1 TTGGATTTCTCTATT
*
93546646 TTGGATCTCT-TAATT
1 TTGGATTTCTCT-ATT
* *
93546661 CTAGG-TTTCTCCATT
1 -TTGGATTTCTCTATT
93546676 TTGGATTTCT
1 TTGGATTTCT
93546686 TTATCTTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 4 0.13
15 24 0.77
16 3 0.10
ACGTcount: A:0.15, C:0.16, G:0.15, T:0.55
Consensus pattern (15 bp):
TTGGATTTCTCTATT
Found at i:93548219 original size:42 final size:42
Alignment explanation
Indices: 93548170--93548275 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
93548160 TTCATTTTCT
** ** *
93548170 TGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TGATGCCATAGCCCAACTATGGCCTTACACATATTCACATAA
*
93548212 TGATGCCATAGCCCAGCTATGGCCTTACACATATTCACAT-A
1 TGATGCCATAGCCCAACTATGGCCTTACACATATTCACATAA
* *
93548253 TCGATGTCATAGCCCAGCTATGG
1 T-GATGCCATAGCCCAACTATGG
93548276 TCATACATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
TGATGCCATAGCCCAACTATGGCCTTACACATATTCACATAA
Found at i:93548292 original size:42 final size:42
Alignment explanation
Indices: 93548195--93548420 Score: 116
Period size: 48 Copynumber: 4.9 Consensus size: 42
93548185 ACTATGGTTT
** *
93548195 TACACATCTTCACATAAT-GATGCCATAGCCCAGCTATGGCCT
1 TACACATAATCACAT-ATCGATGCCATAGCCCAGCTATGGCCA
* *
93548237 TACACATATTCACATATCGATGTCATAGCCCAGCTATGGTCATACA
1 TACACATAATCACATATCGATGCCATAGCCCAGCTATGG-C---CA
**
93548283 TGTAATCACAT-ATCACATATCGATGCCATAGCCCAGCTATAATCTTACA
1 --T-A-CACATAATCACATATCGATGCCATAGCCCAGCTAT-GGC---CA
* * * * *
93548332 TGA-ATCAGATATCACATATCGATGCCATAGTCCAGCTATAGTCT
1 T-ACA-CATA-ATCACATATCGATGCCATAGCCCAGCTATGGCCA
*
93548376 TACACGAATCACATATCACATATCGATGCCATAGCCCAACTATGG
1 TACAC--AT---A-ATCACATATCGATGCCATAGCCCAGCTATGG
93548421 TCTTACTCGA
Statistics
Matches: 147, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.01
42 34 0.23
43 3 0.02
44 3 0.02
45 2 0.01
46 3 0.02
47 3 0.02
48 59 0.40
49 33 0.22
50 5 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (42 bp):
TACACATAATCACATATCGATGCCATAGCCCAGCTATGGCCA
Found at i:93548320 original size:91 final size:93
Alignment explanation
Indices: 93548204--93548440 Score: 283
Period size: 96 Copynumber: 2.6 Consensus size: 93
93548194 TTACACATCT
* * *
93548204 TCACATAAT-GATGCCATAGCCCAGCTATGGCCTTAC-A-CATAT-TCACATATCGATGTCATAG
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACAATCAGATATCACATATCGATGCCATAG
* *
93548265 CCCAGCTATGGTCATACATGTAATCACATA
65 CCCAGCTATAGTCATACACG-AATCACATA
**
93548295 TCACATATCGATGCCATAGCCCAGCTATAATCTTACATGAATCAGATATCACATATCGATGCCAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTAC---AATCAGATATCACATATCGATGCCAT
* *
93548360 AGTCCAGCTATAGTCTTACACGAATCACATA
63 AGCCCAGCTATAGTCATACACGAATCACATA
*
93548391 TCACATATCGATGCCATAGCCCAACTATGGTCTTAC--TC-GA-ATCACATATC
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAATCAGATATCACATATC
93548441 TCACTGATGC
Statistics
Matches: 127, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
89 10 0.08
90 4 0.03
91 32 0.25
95 1 0.01
96 46 0.36
97 34 0.27
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (93 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAATCAGATATCACATATCGATGCCATAGC
CCAGCTATAGTCATACACGAATCACATA
Found at i:93548356 original size:48 final size:48
Alignment explanation
Indices: 93548239--93548440 Score: 289
Period size: 48 Copynumber: 4.2 Consensus size: 48
93548229 TATGGCCTTA
* * *
93548239 CACATATTCACATATCGATGTCATAGCCCAGCTATGGTCATACATGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATAGTCTTACATG-AAT
*
93548289 CACATATCACATATCGATGCCATAGCCCAGCTATAATCTTACATGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACATGAAT
* * *
93548337 CAGATATCACATATCGATGCCATAGTCCAGCTATAGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACATGAAT
* *
93548385 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTAC-TCGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACAT-GAAT
93548433 CACATATC
1 CACATATC
93548441 TCACTGATGC
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 97 0.70
49 35 0.25
50 6 0.04
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATAGTCTTACATGAAT
Found at i:93553869 original size:43 final size:43
Alignment explanation
Indices: 93553719--93553876 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
93553709 GATATCTTTT
* *
93553719 CGTGTAAGACCACGT-TGGGA-TGTTGGCATCAAT-TTATGATTTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGA-TTA
* * *
93553762 CGTGTAAGACCATGTATGGGACA-TCGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACAGT-GGCATCGATATTTGATTA
93553804 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTA
* * *
93553847 CATGTAAGACCACGTCTAGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACAGTGGCAT
93553877 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
42 29 0.30
43 54 0.56
44 14 0.14
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTA
Found at i:93553869 original size:85 final size:85
Alignment explanation
Indices: 93553716--93553881 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
93553706 TCCGATATCT
* * * *
93553716 TTTCGTGTAAGACCACGTTGGGATGTTGGCATCAATTTATGATTTACGTGTAAGACCATGTATGG
1 TTTCGTGTAAGACCACGTTGGGAAGTTGGCATCAATTTATGATTTACATGTAAGACCACGTATAG
93553781 GACATCGGCATCGTATTTGA
66 GACATCGGCATCGTATTTGA
*
93553801 TTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATT-TGA-TTACATGTAAGACCACGT
1 TTTCGTGTAAGACCAC-GT-TGGGA-AGTTGGCATCAAT-TTATGATTTACATGTAAGACCACGT
* * *
93553862 CTAGGACATTGGCATTGTAT
62 ATAGGACATCGGCATCGTAT
93553882 GAGCTTTCCG
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
84 1 0.01
85 48 0.70
86 17 0.25
87 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (85 bp):
TTTCGTGTAAGACCACGTTGGGAAGTTGGCATCAATTTATGATTTACATGTAAGACCACGTATAG
GACATCGGCATCGTATTTGA
Found at i:93558200 original size:43 final size:42
Alignment explanation
Indices: 93558153--93558289 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 42
93558143 TCCCAAACTT
* *
93558153 GGTCTTACATGTAATCAAATATCGATGCCACCGTCCCAGATAG
1 GGTCTTACACGTAATCAAATATCGATGCCA-CGTCCCAGACAG
* * * *
93558196 GGTCTTACACGAAATCAAATAT-GATGCTGATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGC-CACGTCCCAGACAG
* *
93558238 GGTCTTACGCGTAAATCACAA-ATCGATGCCAACGTCCCTGAC-G
1 GGTCTTACACGT-AATCA-AATATCGATGCC-ACGTCCCAGACAG
93558281 TGGTCTTAC
1 -GGTCTTAC
93558290 TCGAAAACAC
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
42 24 0.32
43 28 0.37
44 24 0.32
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATATCGATGCCACGTCCCAGACAG
Found at i:93558678 original size:8 final size:8
Alignment explanation
Indices: 93558665--93558689 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
93558655 AAATTAGCCC
93558665 TCACATTT
1 TCACATTT
93558673 TCACATTT
1 TCACATTT
93558681 TCACATTT
1 TCACATTT
93558689 T
1 T
93558690 AACACTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:93561253 original size:27 final size:27
Alignment explanation
Indices: 93561223--93561400 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
93561213 ATATTGAGTC
* * * *
93561223 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
93561250 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
93561277 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
93561305 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
93561332 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
93561359 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
93561386 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93561401 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:93561362 original size:82 final size:81
Alignment explanation
Indices: 93561244--93561399 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
93561234 TGCTATATAA
* *
93561244 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
93561309 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
93561326 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
93561390 CACTTAGTGC
65 CACTTAGTGC
93561400 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:93569316 original size:27 final size:27
Alignment explanation
Indices: 93569286--93569463 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
93569276 ATATTGAGTC
* * * *
93569286 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
93569313 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
93569340 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
93569368 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
93569395 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
93569422 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
93569449 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93569464 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:93569425 original size:82 final size:81
Alignment explanation
Indices: 93569307--93569462 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
93569297 TGCTATATAA
* *
93569307 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
93569372 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
93569389 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
93569453 CACTTAGTGC
65 CACTTAGTGC
93569463 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:93578579 original size:13 final size:13
Alignment explanation
Indices: 93578563--93578595 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
93578553 TTTAATTAAA
*
93578563 TTAGTTAATTAGT
1 TTAGATAATTAGT
93578576 TTAGATAATTAGT
1 TTAGATAATTAGT
93578589 TTA-ATAA
1 TTAGATAA
93578596 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:93584005 original size:6 final size:6
Alignment explanation
Indices: 93583983--93584034 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
93583973 TCCTCCTATC
*
93583983 TTTTTA TTCTTA TTTTT- TATTTTA -TTTTA -TTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA
93584029 TTTTTA
1 TTTTTA
93584035 CTTTCATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 11 0.27
6 30 0.73
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:93584007 original size:5 final size:5
Alignment explanation
Indices: 93583997--93584063 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
93583987 TATTCTTATT
* *
93583997 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA TTTTTA CTTTCA TTTCAA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA -TTTTA TTT-TA
93584047 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
93584064 GAAAGACATA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
3 3 0.06
5 26 0.48
6 25 0.46
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:93584007 original size:12 final size:11
Alignment explanation
Indices: 93583983--93584063 Score: 74
Period size: 12 Copynumber: 6.9 Consensus size: 11
93583973 TCCTCCTATC
93583983 TTTTTATTCTTA
1 TTTTTATT-TTA
93583995 TTTTTTATTTTA
1 -TTTTTATTTTA
93584007 -TTTTATTTTA
1 TTTTTATTTTA
93584017 TTTTTATTTTTA
1 TTTTTA-TTTTA
*
93584029 TTTTTACTTTCA
1 TTTTTA-TTTTA
**
93584041 TTTCAATTTTA
1 TTTTTATTTTA
93584052 TTATTTTATTTT
1 -T-TTTTATTTT
93584064 GAAAGACATA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
10 10 0.18
11 9 0.16
12 23 0.40
13 15 0.26
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:93584024 original size:28 final size:29
Alignment explanation
Indices: 93583984--93584063 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
93583974 CCTCCTATCT
* *
93583984 TTTTATTCTTATTTTTTATTTTA-TTTTA
1 TTTTATTTTTATTTTTTATTTTACTTTCA
93584012 TTTTATTTTTA-TTTTTATTTTTACTTTCA
1 TTTTATTTTTATTTTTTA-TTTTACTTTCA
* *
93584041 TTTCAATTTTATTATTTTATTTT
1 TTTTATTTTTATT-TTTTATTTT
93584064 GAAAGACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 6 0.14
28 15 0.34
29 13 0.30
30 5 0.11
31 5 0.11
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTATTTTTATTTTTTATTTTACTTTCA
Found at i:93593504 original size:45 final size:44
Alignment explanation
Indices: 93593419--93593504 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
93593409 TATGTAATCT
**
93593419 GAACTCATTGAGTTGTGTCTGAGTTCATGATACATATGACATCC
1 GAACTCATTGAGTTGTGTCAAAGTTCATGATACATATGACATCC
* **
93593463 GAACTCATTGAGTTGTGGTCAAAGTTCGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCAAAGTTCATGATACATATGACA
93593505 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 16 0.44
45 20 0.56
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCAAAGTTCATGATACATATGACATCC
Found at i:93595263 original size:173 final size:173
Alignment explanation
Indices: 93594974--93595324 Score: 684
Period size: 173 Copynumber: 2.0 Consensus size: 173
93594964 AAAGTTTACC
*
93594974 TATACATATTTATTTTTTTTCGAATAGCTATCAAATCCACATACCCATATACCAAATATACCTCT
1 TATACATATTTATTTATTTTCGAATAGCTATCAAATCCACATACCCATATACCAAATATACCTCT
93595039 TATAAATAACATCCATTTTAATTTACAAATGCATTACATGTTATAACACAATACGCATCCATCTA
66 TATAAATAACATCCATTTTAATTTACAAATGCATTACATGTTATAACACAATACGCATCCATCTA
93595104 TTTCTCTATAATTGAAACACATGATTAAACACCATCATATATA
131 TTTCTCTATAATTGAAACACATGATTAAACACCATCATATATA
93595147 TATACATATTTATTTATTTTCGAATAGCTATCAAATCCACATACCCATATACCAAATATACCTCT
1 TATACATATTTATTTATTTTCGAATAGCTATCAAATCCACATACCCATATACCAAATATACCTCT
*
93595212 TATAAATAACATCCATTTTAATTTACTAATGCATTACATGTTATAACACAATACGCATCCATCTA
66 TATAAATAACATCCATTTTAATTTACAAATGCATTACATGTTATAACACAATACGCATCCATCTA
93595277 TTTCTCTATAATTGAAACACATGATTAAACACCATCATATATA
131 TTTCTCTATAATTGAAACACATGATTAAACACCATCATATATA
93595320 TATAC
1 TATAC
93595325 CTAAAGATGA
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (173 bp):
TATACATATTTATTTATTTTCGAATAGCTATCAAATCCACATACCCATATACCAAATATACCTCT
TATAAATAACATCCATTTTAATTTACAAATGCATTACATGTTATAACACAATACGCATCCATCTA
TTTCTCTATAATTGAAACACATGATTAAACACCATCATATATA
Found at i:93600317 original size:16 final size:16
Alignment explanation
Indices: 93600298--93600328 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93600288 CTTCTTCACT
93600298 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
93600314 TACTTACTTACTTAA
1 TACTCACTTACTTAA
93600329 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:93600334 original size:20 final size:20
Alignment explanation
Indices: 93600295--93600334 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
93600285 AAACTTCTTC
* *
93600295 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
93600315 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
93600335 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:93600710 original size:55 final size:53
Alignment explanation
Indices: 93600520--93600774 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
93600510 ACACGGGTAC
* * * *
93600520 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
93600569 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
93600622 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
93600677 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
93600730 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
93600775 AAACCCTAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 39 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:93600711 original size:108 final size:110
Alignment explanation
Indices: 93600567--93600764 Score: 321
Period size: 108 Copynumber: 1.8 Consensus size: 110
93600557 ATCCTTTTGA
* *
93600567 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
93600630 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
93600675 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
93600740 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
93600765 CGGTATCCTT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:93609039 original size:25 final size:25
Alignment explanation
Indices: 93609001--93609053 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
93608991 CCAGTGTAAG
*
93609001 ACCATGTCTAGGACATGGCATTGGC
1 ACCATGTCTAGGACATGGCATCGGC
*
93609026 ACCATGTCTGGGACATGGCATCGGC
1 ACCATGTCTAGGACATGGCATCGGC
93609051 ACC
1 ACC
93609054 TTACCCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (25 bp):
ACCATGTCTAGGACATGGCATCGGC
Found at i:93614994 original size:42 final size:43
Alignment explanation
Indices: 93614935--93615058 Score: 141
Period size: 42 Copynumber: 2.9 Consensus size: 43
93614925 ATGTTATCAA
*
93614935 ATAT-CGATGCCACTGTCCCAGACAAGGTCTTACACGA-AATC
1 ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGATAATC
93614976 ATATACGATGCCAATGTCCCAGACATA-GTCTTACAC-ATAATC
1 ATATACGATGCCAATGTCCCAGACA-AGGTCTTACACGATAATC
* * * *
93615018 -TCAAATCGATTCCAATGCCCCAGACATGGTCTTACACGATA
1 AT-ATA-CGATGCCAATGTCCCAGACAAGGTCTTACACGATA
93615059 TTACATCTCG
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
41 6 0.08
42 34 0.48
43 28 0.39
44 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (43 bp):
ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGATAATC
Found at i:93621768 original size:93 final size:93
Alignment explanation
Indices: 93621656--93621827 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93621646 GCCCATAAGT
* *
93621656 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93621721 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
93621749 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93621814 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
93621828 CAAATATCCT
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:93621823 original size:46 final size:46
Alignment explanation
Indices: 93621648--93621823 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
93621638 TGTAACCCGC
* * *
93621648 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
93621694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
93621744 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
93621787 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
93621824 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:93625351 original size:33 final size:34
Alignment explanation
Indices: 93625314--93625377 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
93625304 AAGGAAAGAA
93625314 TGAGGT-AAAA-ACAAGAGAGAAAAACAAAGAGTG
1 TGAGGTAAAAACACAAGAG-GAAAAACAAAGAGTG
*
93625347 TGAGGTAAAAACACAAGAGGAAAAAGAAAGA
1 TGAGGTAAAAACACAAGAGGAAAAACAAAGA
93625378 AAATGAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 15 0.54
35 7 0.25
ACGTcount: A:0.59, C:0.06, G:0.27, T:0.08
Consensus pattern (34 bp):
TGAGGTAAAAACACAAGAGGAAAAACAAAGAGTG
Found at i:93627364 original size:41 final size:43
Alignment explanation
Indices: 93627313--93627460 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
93627303 TATCCTAGAT
*
93627313 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
93627356 AT-G-CTTACAGGAAATCATATAAT-GATTCC-ATGTCCTAGAC
1 ATGGTCTTACATGTAATCACAT-ATCGATGCCAATGTCCCAGAC
* * * *
93627396 ATGGTATTACACGTAATCACA-ATACAATGCCAATATCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
93627439 ATGGTCTTACATGTAATTACAT
1 ATGGTCTTACATGTAATCACAT
93627461 CTCAGTAATC
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
40 14 0.17
41 19 0.23
42 19 0.23
43 29 0.36
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:93627449 original size:43 final size:41
Alignment explanation
Indices: 93627291--93627460 Score: 139
Period size: 43 Copynumber: 4.1 Consensus size: 41
93627281 TCATATAACT
* * *
93627291 CATACAATGCCATATCCTAGATATGGTCTTACATGTTATCA
1 CATACAATGCCATATCCCAGACATGGTCTTACATGTAATCA
* * * *
93627332 CATATCGATGCCAATGTCCCAGACAT-G-CTTACAGGAAATCA
1 CATA-CAATGCC-ATATCCCAGACATGGTCTTACATGTAATCA
* * * * * *
93627373 TATA-ATGATTCCATGTCCTAGACATGGTATTACACGTAATCA
1 CATACA--ATGCCATATCCCAGACATGGTCTTACATGTAATCA
*
93627415 CAATACAATGCCAATATCCCAGACATGGTCTTACATGTAATTA
1 C-ATACAATGCC-ATATCCCAGACATGGTCTTACATGTAATCA
93627458 CAT
1 CAT
93627461 CTCAGTAATC
Statistics
Matches: 99, Mismatches: 21, Indels: 17
0.72 0.15 0.12
Matches are distributed among these distances:
40 12 0.12
41 23 0.23
42 24 0.24
43 39 0.39
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (41 bp):
CATACAATGCCATATCCCAGACATGGTCTTACATGTAATCA
Found at i:93636090 original size:43 final size:42
Alignment explanation
Indices: 93636024--93636135 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
93636014 ACATATCGAC
* * * *
93636024 GCCACTGTCCCAGACAGGGTCTTACACGAAATCGATTAAT-GAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATC--TAAATAAAT
*
93636067 GCCAATGTCCCAGACATGGTCTTACACGTAATCTAAATACAAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCTAAATA-AAT
* *
93636110 GCCAATGTCCCAAACATAGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
93636136 TGTAATCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 4 0.07
43 56 0.93
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATCTAAATAAAT
Found at i:93640244 original size:26 final size:26
Alignment explanation
Indices: 93640208--93640259 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
93640198 GTAACCCGCC
*
93640208 CATAAGCGAACTCGGACTCAACTCAA
1 CATAAGCGAACTCAGACTCAACTCAA
* *
93640234 CATAAGTGAACTCAGACTCCACTCAA
1 CATAAGCGAACTCAGACTCAACTCAA
93640260 TGAGCTCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.31, G:0.13, T:0.17
Consensus pattern (26 bp):
CATAAGCGAACTCAGACTCAACTCAA
Found at i:93640346 original size:46 final size:46
Alignment explanation
Indices: 93640288--93640455 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 46
93640278 TACATCTCAC
93640288 GAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
* * * * * *
93640334 GAACTC-GAACTCAACTCAACAAGCTCGGATACCCAGTT-ACAT-C-TCA-C
1 GAACTCAG-ACTCAACTCAACGAGTTC--AGA--CA-TTCGCATCCATAAGT
* * *
93640381 GAACTC-GAACTCAACTCAACGAGTTCGGACGTTCGCATCTATAAGT
1 GAACTCAG-ACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
93640427 GAACTCAGACTCAACTCAACGAGTTCAGA
1 GAACTCAGACTCAACTCAACGAGTTCAGA
93640456 TGCCCAAATA
Statistics
Matches: 95, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 48 0.51
47 25 0.26
48 4 0.04
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
Found at i:93640393 original size:93 final size:93
Alignment explanation
Indices: 93640234--93640446 Score: 322
Period size: 93 Copynumber: 2.3 Consensus size: 93
93640224 CTCAACTCAA
* ** * *
93640234 CATAAGTGAACTCAGACTCCACTCAATGAGCTCGGATGCCTAGTTACATCTCACGAACTCAGACT
1 CATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATACCCAGTTACATCTCACGAACTCAGACT
93640299 CAACTCAACGAGTTCAGACATTCGCATC
66 CAACTCAACGAGTTCAGACATTCGCATC
93640327 CATAAGTGAACTC-GAACTCAACTCAACAAGCTCGGATACCCAGTTACATCTCACGAACTC-GAA
1 CATAAGTGAACTCAG-ACTCAACTCAACAAGCTCGGATACCCAGTTACATCTCACGAACTCAG-A
* *
93640390 CTCAACTCAACGAGTTCGGACGTTCGCATC
64 CTCAACTCAACGAGTTCAGACATTCGCATC
*
93640420 TATAAGTGAACTCAGACTCAACTCAAC
1 CATAAGTGAACTCAGACTCAACTCAAC
93640447 GAGTTCAGAT
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
92 2 0.02
93 106 0.97
94 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (93 bp):
CATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATACCCAGTTACATCTCACGAACTCAGACT
CAACTCAACGAGTTCAGACATTCGCATC
Found at i:93645508 original size:27 final size:27
Alignment explanation
Indices: 93645470--93645522 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
93645460 TTACCTAGAC
*
93645470 CCTCTAATTGAT-AAGATGACTATTATA
1 CCTCTAATTGATGAA-ATAACTATTATA
93645497 CCTCT-ATGTGATGAAATAACTATTAT
1 CCTCTAAT-TGATGAAATAACTATTAT
93645523 GCCCCTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.09
27 19 0.83
28 2 0.09
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (27 bp):
CCTCTAATTGATGAAATAACTATTATA
Found at i:93648362 original size:256 final size:256
Alignment explanation
Indices: 93647907--93648408 Score: 1004
Period size: 256 Copynumber: 2.0 Consensus size: 256
93647897 GCCGTTGAAG
93647907 TCGTTCGACGACATTTGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATT
1 TCGTTCGACGACATTTGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATT
93647972 AGTCATATTATGACGGATAGTCGAATGTGCTTAGAGACTATGTTATAAAGCCAATTGAAATCATG
66 AGTCATATTATGACGGATAGTCGAATGTGCTTAGAGACTATGTTATAAAGCCAATTGAAATCATG
93648037 CTCTTTGTGTGTGGCTATTGAGCCGAAATTTGAAAGGTTTAATAAATGTTTGTGTTTGAGCCTTA
131 CTCTTTGTGTGTGGCTATTGAGCCGAAATTTGAAAGGTTTAATAAATGTTTGTGTTTGAGCCTTA
93648102 GTAACGAAGAAATGATATGGATGTGTAATGATTATTGGTATATGTGTGCATGAGCATTGGA
196 GTAACGAAGAAATGATATGGATGTGTAATGATTATTGGTATATGTGTGCATGAGCATTGGA
93648163 TCGTTCGACGACATTTGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATT
1 TCGTTCGACGACATTTGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATT
93648228 AGTCATATTATGACGGATAGTCGAATGTGCTTAGAGACTATGTTATAAAGCCAATTGAAATCATG
66 AGTCATATTATGACGGATAGTCGAATGTGCTTAGAGACTATGTTATAAAGCCAATTGAAATCATG
93648293 CTCTTTGTGTGTGGCTATTGAGCCGAAATTTGAAAGGTTTAATAAATGTTTGTGTTTGAGCCTTA
131 CTCTTTGTGTGTGGCTATTGAGCCGAAATTTGAAAGGTTTAATAAATGTTTGTGTTTGAGCCTTA
93648358 GTAACGAAGAAATGATATGGATGTGTAATGATTATTGGTATATGTGTGCAT
196 GTAACGAAGAAATGATATGGATGTGTAATGATTATTGGTATATGTGTGCAT
93648409 ATGCGAGATG
Statistics
Matches: 246, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 246 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (256 bp):
TCGTTCGACGACATTTGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATT
AGTCATATTATGACGGATAGTCGAATGTGCTTAGAGACTATGTTATAAAGCCAATTGAAATCATG
CTCTTTGTGTGTGGCTATTGAGCCGAAATTTGAAAGGTTTAATAAATGTTTGTGTTTGAGCCTTA
GTAACGAAGAAATGATATGGATGTGTAATGATTATTGGTATATGTGTGCATGAGCATTGGA
Found at i:93648468 original size:40 final size:40
Alignment explanation
Indices: 93648408--93648486 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
93648398 TATGTGTGCA
93648408 TATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
93648448 TATGCGAGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
1 TATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA
93648487 ATGTGTTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (40 bp):
TATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:93652536 original size:68 final size:67
Alignment explanation
Indices: 93652464--93652613 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
93652454 CATCATGTGT
* * * *
93652464 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
93652526 ATGTAG
62 ATGTAG
** * *
93652532 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
93652597 AG
66 AG
93652599 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
93652614 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:93652569 original size:64 final size:64
Alignment explanation
Indices: 93652488--93652671 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
93652478 AGACATTATG
* *
93652488 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
93652552 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
93652617 AA
63 AA
* * * *
93652619 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
93652672 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:93661059 original size:73 final size:73
Alignment explanation
Indices: 93660935--93661076 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
93660925 TGCTCTTGAG
* * * *
93660935 GTTCTTTGGTGCTTGGAGGCCGAATGTTGTTAGGGTTCCTTCTGGGCATCTTTCTGTTTTGCCTA
1 GTTCTTTGCTGCTTGGAGGCCGAATGTTGTTAGGGTTCCTTCTGGGCATCTTTCTATTTTACCAA
93661000 TTTCGACT
66 TTTCGACT
* * *
93661008 GTTCTTTGCTGCTTGGAGGCCGAATGTTGTTGGGGTTCCTTTTGGGTATCTTTCTATTTTACCAA
1 GTTCTTTGCTGCTTGGAGGCCGAATGTTGTTAGGGTTCCTTCTGGGCATCTTTCTATTTTACCAA
93661073 TTTC
66 TTTC
93661077 AACTTTGGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.11, C:0.18, G:0.26, T:0.45
Consensus pattern (73 bp):
GTTCTTTGCTGCTTGGAGGCCGAATGTTGTTAGGGTTCCTTCTGGGCATCTTTCTATTTTACCAA
TTTCGACT
Found at i:93662454 original size:27 final size:27
Alignment explanation
Indices: 93662423--93662480 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
93662413 ACCCTCTAAT
93662423 TGATAAAATAACTATTATGCCCCTATG
1 TGATAAAATAACTATTATGCCCCTATG
*
93662450 TGATAAAATGACTATTATGCCCCTATG
1 TGATAAAATAACTATTATGCCCCTATG
93662477 TGAT
1 TGAT
93662481 GTATGACTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (27 bp):
TGATAAAATAACTATTATGCCCCTATG
Found at i:93663724 original size:27 final size:27
Alignment explanation
Indices: 93663676--93663834 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
93663666 GCGAGGCTGC
** * *
93663676 CAGATATTGTCACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
93663703 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* * *
93663729 CAAATATACGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
93663756 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
93663783 CATATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
93663810 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
93663835 GACGCTTCCT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 9 0.08
27 95 0.88
28 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:93663835 original size:54 final size:54
Alignment explanation
Indices: 93663694--93663837 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
93663684 GTCACGGAGT
* * *
93663694 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAAATATACGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAAATATACGTGGCAGAGC
* *
93663748 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACATATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATACGTGGCAGAGC
93663802 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
93663838 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATACGTGGCAGAGC
Found at i:93665148 original size:26 final size:26
Alignment explanation
Indices: 93665117--93665276 Score: 284
Period size: 26 Copynumber: 6.2 Consensus size: 26
93665107 NNNNNNNCCC
* *
93665117 ATCATGGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93665143 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93665169 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93665195 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93665221 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93665247 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93665273 ATCA
1 ATCA
93665277 ATTTGTACCA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 128 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93668573 original size:46 final size:45
Alignment explanation
Indices: 93668464--93668601 Score: 178
Period size: 46 Copynumber: 3.1 Consensus size: 45
93668454 TGGCTCTCAC
93668464 ACATC-CGT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-
1 ACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
* *
93668506 ACATCTCGTAGCCGATGCATGTCCCA-AGCATGTATTACACTGGCTT
1 ACATCTCGTAGCCGATGCATGTCCCAGA-CATGTCTTACACTAGC-T
*
93668552 ACATCTCG-AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCT
1 ACATCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
93668597 CACAT
1 -ACAT
93668602 AACAACAGTG
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
42 5 0.06
43 4 0.05
44 30 0.36
45 2 0.02
46 41 0.49
47 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
ACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
Found at i:93668836 original size:30 final size:28
Alignment explanation
Indices: 93668795--93668852 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 28
93668785 ATTTCATAAA
93668795 TATGATTTTGCCCCTAAACTTCGTCAAAAT
1 TATGATTTTGCCCCTAAACTT-GT-AAAAT
*
93668825 TATGTTTTTGCCCCTAAACTTGTAAAAT
1 TATGATTTTGCCCCTAAACTTGTAAAAT
93668853 GATTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 2 0.07
30 20 0.74
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (28 bp):
TATGATTTTGCCCCTAAACTTGTAAAAT
Found at i:93671520 original size:40 final size:40
Alignment explanation
Indices: 93671420--93671684 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
93671410 GCTCCTCGTT
* * * *
93671420 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
93671460 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
93671499 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
93671539 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
93671579 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
93671619 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
93671660 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
93671685 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:93671644 original size:80 final size:80
Alignment explanation
Indices: 93671387--93671684 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
93671377 AAATCACGTA
* ** * * *
93671387 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
93671449 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
93671465 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
93671528 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
93671545 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
93671609 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
93671625 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
93671685 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:93671693 original size:41 final size:41
Alignment explanation
Indices: 93671616--93671693 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
93671606 TTTGTATCTC
* * *
93671616 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
93671657 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
93671694 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:93685481 original size:130 final size:130
Alignment explanation
Indices: 93685248--93685508 Score: 459
Period size: 130 Copynumber: 2.0 Consensus size: 130
93685238 AATAAGGCGA
* *
93685248 AGCTTAAGATACACAGAGAACGAGCAAGAAGACGATACTCAACCCCCAACCGAAGAGATGGCTGA
1 AGCTTAAGATACACAGAGAACAAGCAAGAAGACGATACTCAACCCCCAACCGAAGAGATGGCTAA
* ** * *
93685313 AAACCAAGGCAATTAGCTACCTCTTGTAATTGCGGCTAATCAAAATCCTGCTCCACGTACTATGT
66 AAACCAAGGCAATCAGCTACCTCCCGCAATTGCGGCTAATCAAAATCCTACTCCACGTACTATGT
93685378 AGCTTAAGATACACAGAGAACAAGCAAGAAGACGATACTCAACCCCCAACCGAAGAGATGGCTAA
1 AGCTTAAGATACACAGAGAACAAGCAAGAAGACGATACTCAACCCCCAACCGAAGAGATGGCTAA
93685443 AAACCAAGGCAATCAGCTACCTCCCGCAATTGCGGCTAATCAAAATCCTACTCCACGTACTATGT
66 AAACCAAGGCAATCAGCTACCTCCCGCAATTGCGGCTAATCAAAATCCTACTCCACGTACTATGT
93685508 A
1 A
93685509 TGATTAAGCT
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 124 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (130 bp):
AGCTTAAGATACACAGAGAACAAGCAAGAAGACGATACTCAACCCCCAACCGAAGAGATGGCTAA
AAACCAAGGCAATCAGCTACCTCCCGCAATTGCGGCTAATCAAAATCCTACTCCACGTACTATGT
Found at i:93696104 original size:11 final size:10
Alignment explanation
Indices: 93696088--93696159 Score: 71
Period size: 9 Copynumber: 7.3 Consensus size: 10
93696078 TATGTTTAAT
93696088 TTTATTTTGTA
1 TTTATTTT-TA
93696099 TTTATTTTTA
1 TTTATTTTTA
*
93696109 TTT-TTATT-
1 TTTATTTTTA
93696117 TTTATTTTTA
1 TTTATTTTTA
*
93696127 TTT-TTATT-
1 TTTATTTTTA
93696135 TTTATTTTTA
1 TTTATTTTTA
93696145 TTGTCATTTTTA
1 TT-T-ATTTTTA
93696157 TTT
1 TTT
93696160 TTATTTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 6 0.12
9 16 0.31
10 10 0.20
11 10 0.20
12 9 0.18
ACGTcount: A:0.17, C:0.01, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:93696108 original size:6 final size:6
Alignment explanation
Indices: 93696077--93696177 Score: 125
Period size: 6 Copynumber: 16.8 Consensus size: 6
93696067 CCGGCGATGA
* *
93696077 TTATGT TTAATT TTATTT TGTA--T TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT T-TATTT TTATTT TTATTT TTATTT TTATTT
* * *
93696124 TTATTT TTATTT TTATTT TTATTG TCATTT TTATTT TTATTT TATGTTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T-TATTT
93696173 TTATT
1 TTATT
93696178 AATTTCACCC
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
4 2 0.02
5 2 0.02
6 71 0.87
7 7 0.09
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:93698274 original size:40 final size:40
Alignment explanation
Indices: 93698215--93698357 Score: 232
Period size: 40 Copynumber: 3.6 Consensus size: 40
93698205 CTATCCAAAC
* * * *
93698215 AATGCCTTCAGGTCCTAGCCCGGATACAGTAACTCGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
* *
93698255 AATGCCTTTGGGTCTTAGCCCGGATATAGCAACTCGCACC
1 AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
93698295 AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
93698335 AATGCCTTCGGGTCTTAGCCCGG
1 AATGCCTTCGGGTCTTAGCCCGG
93698358 TTATCATCCG
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
Found at i:93698558 original size:40 final size:40
Alignment explanation
Indices: 93698514--93698605 Score: 175
Period size: 40 Copynumber: 2.3 Consensus size: 40
93698504 CGCTATATAA
93698514 GTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGG
1 GTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGG
*
93698554 GTCTTAGCCCGAATATAGCAACTCGCACAAATGCCTTCGG
1 GTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGG
93698594 GTCTTAGCCCGG
1 GTCTTAGCCCGG
93698606 TTATCATCCG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
GTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGG
Found at i:93707512 original size:46 final size:47
Alignment explanation
Indices: 93707406--93707527 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
93707396 TGTCTTCGAC
** * *
93707406 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
93707456 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
93707502 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
93707528 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:93707896 original size:29 final size:30
Alignment explanation
Indices: 93707864--93707923 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
93707854 TCCTTTACTC
93707864 AAACTTTGGAAAAATTACA-TTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * * *
93707893 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
93707923 A
1 A
93707924 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:93708055 original size:18 final size:18
Alignment explanation
Indices: 93708032--93708069 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
93708022 TATGACTAAT
93708032 AGGTATTTTTACCGATTA
1 AGGTATTTTTACCGATTA
*
93708050 AGGTATTTTTATCGATTA
1 AGGTATTTTTACCGATTA
93708068 AG
1 AG
93708070 CCCTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (18 bp):
AGGTATTTTTACCGATTA
Found at i:93721526 original size:43 final size:43
Alignment explanation
Indices: 93721412--93721519 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
93721402 GATTAACGAG
* * * *
93721412 ATGTGATTATGCGTAAGACCATGTTTGGGACATTGGAATCATT
1 ATGTGATTACGTGTAACACCATGTCTGGGACATTGGAATCATT
* * *
93721455 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACGTGTAACACCATGTCTGGGACATTGGAATCATT
* *
93721498 ATTTGATTTCGTGTAACACCAT
1 ATGTGATTACGTGTAACACCAT
93721520 AGCTGGGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
ATGTGATTACGTGTAACACCATGTCTGGGACATTGGAATCATT
Found at i:93724673 original size:43 final size:42
Alignment explanation
Indices: 93724604--93724727 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 42
93724594 AGCTCATACA
** * * *
93724604 ATGCCATATCCCAGGTATGGTATTACATGTTATCACATATTG
1 ATGCCATATCCCAGACATGGTCTTACATGTAATCACATAATG
* * * * *
93724646 ATGCCACTATCCCAGACAGGGTCTTACACGAAATTGA-TTAATG
1 ATGCCA-TATCCCAGACATGGTCTTACATGTAA-TCACATAATG
*
93724689 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCC-ATATCCCAGACATGGTCTTACATGTAATCACAT
93724728 CTCGGTAACC
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
42 8 0.13
43 51 0.82
44 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACATGTAATCACATAATG
Found at i:93733153 original size:30 final size:30
Alignment explanation
Indices: 93733119--93733180 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
93733109 TCCTTAACTC
93733119 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
93733149 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
93733179 AA
1 AA
93733181 TCTCGGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:93740661 original size:28 final size:27
Alignment explanation
Indices: 93740598--93740749 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
93740588 ATATTAAGTC
* *
93740598 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
93740625 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
93740653 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
93740680 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
93740708 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
93740735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93740750 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:93740682 original size:55 final size:55
Alignment explanation
Indices: 93740598--93740774 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
93740588 ATATTAAGTC
* * *
93740598 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
93740653 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
93740708 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
93740764 CGCACACTTAG
1 CGCACACTTAG
93740775 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:93751724 original size:28 final size:29
Alignment explanation
Indices: 93751665--93751729 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
93751655 TTCATATTTA
93751665 TTTTA-CAATTTAACCCCTTAAATTGCAC
1 TTTTATCAATTTAACCCCTTAAATTGCAC
* * *
93751693 TTTTCTCAATTTAA-TCCTT-AATTGACAT
1 TTTTATCAATTTAACCCCTTAAATTG-CAC
93751721 TTTTATCAA
1 TTTTATCAA
93751730 AAATCACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 5 0.16
28 18 0.58
29 8 0.26
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTTATCAATTTAACCCCTTAAATTGCAC
Found at i:93753550 original size:24 final size:22
Alignment explanation
Indices: 93753508--93753551 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
93753498 TTAAAGTGTA
93753508 AATATGAAAAATTTGAAGGGCT
1 AATATGAAAAATTTGAAGGGCT
*
93753530 AATAGTGAAAATATTTTAAGGG
1 AATA-TGAAAA-ATTTGAAGGG
93753552 TTGAAGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (22 bp):
AATATGAAAAATTTGAAGGGCT
Found at i:93765388 original size:22 final size:23
Alignment explanation
Indices: 93765342--93765389 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
93765332 TCACATGGCT
*
93765342 AAATTCATAACTCAAAATATACA
1 AAATTCAAAACTCAAAATATACA
93765365 AAATTCAAAAC-CAAACATAT-CA
1 AAATTCAAAACTCAAA-ATATACA
93765387 AAA
1 AAA
93765390 CTAGCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATTCAAAACTCAAAATATACA
Found at i:93780923 original size:40 final size:40
Alignment explanation
Indices: 93780879--93781141 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
93780869 GCTCCTCGTT
* *
93780879 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
93780919 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93780959 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93780998 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93781037 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
93781076 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
93781117 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93781142 CATCATTCAA
Statistics
Matches: 204, Mismatches: 10, Indels: 17
0.88 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 114 0.56
40 74 0.36
41 14 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:93789301 original size:22 final size:23
Alignment explanation
Indices: 93789275--93789322 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
93789265 TATAGGCTAG
*
93789275 TTTTGATATG-TTTG-GTTTTGAA
1 TTTTG-TATGTTTTGAGTTATGAA
93789297 TTTTGTATGTTTTGAGTTATGAA
1 TTTTGTATGTTTTGAGTTATGAA
93789320 TTT
1 TTT
93789323 AGCCATGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 9 0.39
23 10 0.43
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (23 bp):
TTTTGTATGTTTTGAGTTATGAA
Found at i:93790751 original size:43 final size:43
Alignment explanation
Indices: 93790658--93790824 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
93790648 GGTCACTAAG
* * * * * ** *
93790658 ATGTAATTACACGTACGACCATGTTTGGGACATCGGGGTTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
93790700 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-ATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGA-T
*** *
93790744 AAT-TGATTTTGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
93790787 ATGTGATAACATATAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
93790825 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 9 0.09
43 86 0.87
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:93802419 original size:40 final size:40
Alignment explanation
Indices: 93802375--93802565 Score: 258
Period size: 40 Copynumber: 4.8 Consensus size: 40
93802365 GCCACTAGCT
* * **
93802375 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACA
93802415 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACA
* * * *
93802454 CAAATGCCTTCGAGACTTAGCCCCGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACA
* * *
93802494 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACA
* *
93802534 CGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 CAAATGCCTTCGGGACTTAGCCCGGATATAAT
93802566 CCGAACATTC
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 34 0.25
40 100 0.75
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACA
Found at i:93802473 original size:79 final size:80
Alignment explanation
Indices: 93802375--93802565 Score: 285
Period size: 79 Copynumber: 2.4 Consensus size: 80
93802365 GCCACTAGCT
* * *
93802375 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
93802440 -TATAATAACTCACA
66 ATATAATAACTCACA
* * * *
93802454 CAAATGCCTTCGAGACTTAGCCCCGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
93802519 ATATAGTAGCTCACA
66 ATATAATAACTCACA
*
93802534 CGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAAT
93802566 CCGAACATTC
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
79 58 0.59
80 40 0.41
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCACA
Found at i:93813660 original size:24 final size:24
Alignment explanation
Indices: 93813533--93813690 Score: 106
Period size: 24 Copynumber: 6.6 Consensus size: 24
93813523 ACCGATTTCA
* * *
93813533 CACACATAGTGCTAAAT-AAATTCG
1 CACACATAGTGC-CATTCAAATCCG
* *
93813557 CACACATAGTGCCATGCTACA-CCG
1 CACACATAGTGCCATTC-AAATCCG
* * *
93813581 CACACATAGTGCC-TTGAAGATTCA
1 CACACATAGTGCCATTCAA-ATCCG
* ** * * * *
93813605 CTCATGTATTGACATCCAAATCAG
1 CACACATAGTGCCATTCAAATCCG
*
93813629 CACACATAGTGCCATTCAATTCCG
1 CACACATAGTGCCATTCAAATCCG
93813653 CACACATAGTGCCATTCAAATCCG
1 CACACATAGTGCCATTCAAATCCG
* *
93813677 GACACTTAGTGCCA
1 CACACATAGTGCCA
93813691 ATGTTGACCC
Statistics
Matches: 98, Mismatches: 31, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
22 1 0.01
23 3 0.03
24 89 0.91
25 5 0.05
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (24 bp):
CACACATAGTGCCATTCAAATCCG
Found at i:93827245 original size:38 final size:38
Alignment explanation
Indices: 93827193--93827269 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
93827183 CCCGTGTCTC
93827193 TGCCCATGTAGACAAATATAGGCCATTTGCCAAGCCAA
1 TGCCCATGTAGACAAATATAGGCCATTTGCCAAGCCAA
*
93827231 TGCCCATGTGGACAAATATAGGCCATTTGCCAAGCCAA
1 TGCCCATGTAGACAAATATAGGCCATTTGCCAAGCCAA
93827269 T
1 T
93827270 TTGCCACCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (38 bp):
TGCCCATGTAGACAAATATAGGCCATTTGCCAAGCCAA
Found at i:93828322 original size:42 final size:43
Alignment explanation
Indices: 93828200--93828356 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
93828190 AATGTCATAG
* * *
93828200 CCCAGATATGGTCTTACATGTTATCACACAT-CGATGCCACTGT
1 CCCAGACATGGTCTTACATGTAATCACA-ATACGATGCCAATGT
* * * *
93828243 CCCAGACAGGGTCTTACACGTAATC-GATTAACGATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACAAT-ACGATGCCAATGT
* *
93828286 CCTAGACATGGTCTTACA-GTAATCACAATACAATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACAATACGATGCCAATGT
93828328 CCCAGACATGGTCTTACATGATAATCACA
1 CCCAGACATGGTCTTACATG-TAATCACA
93828357 TCTCGATAAC
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 36 0.38
43 51 0.53
44 8 0.08
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGTAATCACAATACGATGCCAATGT
Found at i:93829917 original size:23 final size:23
Alignment explanation
Indices: 93829886--93829932 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
93829876 ATATATTTCT
93829886 AAATTTATAATAT-ACTTTTATA
1 AAATTTATAATATAACTTTTATA
* *
93829908 AAATTATATATTATAATTTTTATA
1 AAATT-TATAATATAACTTTTATA
93829932 A
1 A
93829933 TATATATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 7 0.33
24 9 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AAATTTATAATATAACTTTTATA
Found at i:93829917 original size:37 final size:37
Alignment explanation
Indices: 93829870--93829952 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
93829860 TTTATATAAC
* *
93829870 AAATATATATATTTCTAA-ATTTATAATATACT-TTTATA
1 AAAT-TATATA-TTATAATATTTATAATATA-TATCTATA
*
93829908 AAATTATATATTATAATTTTTATAATATATATCTATA
1 AAATTATATATTATAATATTTATAATATATATCTATA
93829945 AAATTATA
1 AAATTATA
93829953 CGCTTTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 6 0.15
37 30 0.75
38 4 0.10
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
AAATTATATATTATAATATTTATAATATATATCTATA
Found at i:93829968 original size:8 final size:8
Alignment explanation
Indices: 93829957--93830019 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
93829947 ATTATACGCT
93829957 TTTATATA
1 TTTATATA
93829965 TTTATATA
1 TTTATATA
*
93829973 TTTTTACATA
1 --TTTATATA
*
93829983 TGTTATAGGA
1 T-TTATA-TA
93829993 TTTTATATA
1 -TTTATATA
93830002 TTTATAT-
1 TTTATATA
93830009 TTTATATA
1 TTTATATA
93830017 TTT
1 TTT
93830020 TCAAAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 7 0.16
8 19 0.42
9 5 0.11
10 13 0.29
11 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:93831963 original size:24 final size:24
Alignment explanation
Indices: 93831936--93832012 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
93831926 AAGCTCATGT
93831936 GAGCTAATAATGGGTAGCTCCGAA
1 GAGCTAATAATGGGTAGCTCCGAA
* * * * * *
93831960 GAGCCATTAATTAGGAAGCTCATG-C
1 GAGCTAATAA-TGGGTAGCTC-CGAA
* *
93831985 GAGCTAAAAACGGGTAGCTCCGAA
1 GAGCTAATAATGGGTAGCTCCGAA
93832009 GAGC
1 GAGC
93832013 CATTAATCAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
23 1 0.03
24 19 0.53
25 15 0.42
26 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (24 bp):
GAGCTAATAATGGGTAGCTCCGAA
Found at i:93831982 original size:49 final size:49
Alignment explanation
Indices: 93831925--93832026 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
93831915 TCATAATCGA
* * * *
93831925 GAAGCTCATGTGAGCTAATAATGGGTAGCTCCGAAGAGCCATTAATTAG
1 GAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
93831974 GAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
1 GAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
93832023 GAAG
1 GAAG
93832027 TTCTAGATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (49 bp):
GAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
Found at i:93832047 original size:74 final size:74
Alignment explanation
Indices: 93831961--93832103 Score: 182
Period size: 74 Copynumber: 1.9 Consensus size: 74
93831951 AGCTCCGAAG
* ** *
93831961 AGCCATTAATTAGGAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAA-GAGCCATTAATCAGGA
1 AGCCATTAATTAGGAAGCTCAAGCGAGCTAAAAACAAGAAGCT-CGAAGGAGCCATTAATCAGGA
93832025 AGTTCTAGAT
65 AGTTCTAGAT
* * * *
93832035 AGCCA-TATATTAGGAAGTTCAAGCGAGCTAATATCAAGAAGCTCTAAGGAGCCATTAATCAGGA
1 AGCCATTA-ATTAGGAAGCTCAAGCGAGCTAAAAACAAGAAGCTCGAAGGAGCCATTAATCAGGA
93832099 AGTTC
65 AGTTC
93832104 AAAAAGAGCC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
73 5 0.08
74 54 0.92
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (74 bp):
AGCCATTAATTAGGAAGCTCAAGCGAGCTAAAAACAAGAAGCTCGAAGGAGCCATTAATCAGGAA
GTTCTAGAT
Found at i:93832100 original size:25 final size:26
Alignment explanation
Indices: 93832008--93832120 Score: 92
Period size: 25 Copynumber: 4.5 Consensus size: 26
93831998 GTAGCTCCGA
93832008 AGAGCCATTAATCAGGAAGTTCT-AG
1 AGAGCCATTAATCAGGAAGTTCTAAG
* *
93832033 ATAGCCA-TATATTAGGAAGTTC-AAG
1 AGAGCCATTA-ATCAGGAAGTTCTAAG
* * * * *
93832058 CGAGCTAAT-ATCAAGAAGCTCTAAG
1 AGAGCCATTAATCAGGAAGTTCTAAG
* *
93832083 -GAGCCATTAATCAGGAAGTTCAAAA
1 AGAGCCATTAATCAGGAAGTTCTAAG
*
93832108 AGAGCCTTTAATC
1 AGAGCCATTAATC
93832121 GTGAAGCTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
24 17 0.25
25 38 0.57
26 12 0.18
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGTTCTAAG
Found at i:93832241 original size:24 final size:23
Alignment explanation
Indices: 93832202--93832279 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
93832192 CACAACCAAT
*
93832202 CGGGATGCTCCGAAGAGCTATTAA
1 CGGGAAGCT-CGAAGAGCTATTAA
* *
93832226 CGGGAAGCTCGTAAGAACCATATAA
1 CGGGAAGCTCG-AAGAGCTAT-TAA
* * *
93832251 TGGGAAGCTCGAGAGGGCTAATAA
1 CGGGAAGCTCGA-AGAGCTATTAA
93832275 CGGGA
1 CGGGA
93832280 CAATCTTTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
23 2 0.05
24 23 0.55
25 17 0.40
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (23 bp):
CGGGAAGCTCGAAGAGCTATTAA
Found at i:93832639 original size:5 final size:5
Alignment explanation
Indices: 93832604--93832648 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
93832594 TAAATTTACC
* *
93832604 TCAAT TTAAT GCAAT TCATAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCA-AT TCAAT TCAAT TCAAT TCA
93832649 CATCCTAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 24 0.69
6 11 0.31
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (5 bp):
TCAAT
Found at i:93841806 original size:36 final size:35
Alignment explanation
Indices: 93841719--93842389 Score: 245
Period size: 37 Copynumber: 18.6 Consensus size: 35
93841709 GGTTTACCGT
* * *
93841719 AACCTTTTTAAGGTTGCCTTAGACAAGTTTATCCC
1 AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTCC
* * * *
93841754 AACTTTTTTTATGTTGCCTTGAAAAAAGTCTATTCC
1 AACCTTTTTAAGGTTGCCTT-AAACAAGTCTATTCC
* ** *
93841790 AACCTTTTTAAGGTTGCTTTAAACGGGCCTATTCC
1 AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTCC
* * * *
93841825 AACATTTTTAAGGTTGTCTTAGACAAGTC-AATCC
1 AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTCC
* *
93841859 TAACATTTTCTAAAAGTTGCCTT-----AG---A---C
1 -AACCTTTT-T-AAGGTTGCCTTAAACAAGTCTATTCC
* * * * * * * *
93841886 AACTTTTTTAAGGTTACCCTAGACGATTCTATCCT
1 AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTCC
** *
93841921 TGCCTTTTTTGAAGGTTGCCTTAAACAAGTCTATCCC
1 AACC-TTTTT-AAGGTTGCCTTAAACAAGTCTATTCC
** *
93841958 AACCTTTTTTTAAGGTTGTTTTAGACAAGGTCTA-TCC
1 AACC--TTTTTAAGGTTGCCTTAAACAA-GTCTATTCC
* * ** *
93841995 TAACATTTTTAAAAGGTTTCCTTAAACTGGTCTATCCC
1 -AACCTTTTT--AAGGTTGCCTTAAACAAGTCTATTCC
* * * *
93842033 AACATTTTTCAAAGGTTGCCTTAGACAGGTCTATCCC
1 AACCTTTTT--AAGGTTGCCTTAAACAAGTCTATTCC
* * * *
93842070 AACCTTTTTTAAAAGTTGCTTTAGACAAGGTCTATCCC
1 AACC-TTTTT-AAGGTTGCCTTAAACAA-GTCTATTCC
* *** *
93842108 AACCTTTTTAAAAGGTTGCCTTAGATTGGTCTATCCC
1 AACCTTTTT--AAGGTTGCCTTAAACAAGTCTATTCC
* *
93842145 AACCTTTTTAAAAGGTTGCCTTAGACAATGTCTATACC
1 AACCTTTTT--AAGGTTGCCTTAAACAA-GTCTATTCC
* * ** * *
93842183 AACCTATTTAAGGTTGCCTTAGATGATTCTATCCC
1 AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTCC
* * * *
93842218 AATCTTTTTTAAAGGTTGCCTTAGACAATGTCTGTCCC
1 AA-CCTTTTT-AAGGTTGCCTTAAACAA-GTCTATTCC
* * * ** * *
93842256 AACTTTTTTTAAATGTTGTCTTAAGTAAGGTTTATCCC
1 AAC-CTTTTT-AAGGTTGCCTTAAACAA-GTCTATTCC
** ** **
93842294 AACCTTTTTAAAAGGTTATCTTAGAACTGGTCTAGCCC
1 AACCTTTTT--AAGGTTGCCTTA-AACAAGTCTATTCC
* *
93842332 AACCTTTTTAAGGTTGCCTTAGACAGGTCTA-TCAC
1 AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTC-C
93842367 AACCTTTTTCAAAGGTTGGCCTT
1 AACCTTTTT--AAGGTT-GCCTT
93842390 GACTAGGTTT
Statistics
Matches: 495, Mismatches: 104, Indels: 71
0.74 0.16 0.11
Matches are distributed among these distances:
24 8 0.02
25 1 0.00
26 7 0.01
27 1 0.00
29 1 0.00
30 1 0.00
32 3 0.01
34 5 0.01
35 86 0.17
36 68 0.14
37 169 0.34
38 144 0.29
39 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (35 bp):
AACCTTTTTAAGGTTGCCTTAAACAAGTCTATTCC
Found at i:93842011 original size:75 final size:74
Alignment explanation
Indices: 93841923--93842446 Score: 483
Period size: 75 Copynumber: 7.0 Consensus size: 74
93841913 TCTATCCTTG
** * **
93841923 CCTTTTTTGAAGGTTGCCTTAAACAAGTCTATCCCAACCTTTTTTTAAGGTTGTTTTAGACAAGG
1 CCTTTTTAAAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGAC-AGG
*
93841988 TCTATCCTAA
65 TCTATCCCAA
* * * ** * **
93841998 CATTTTTAAAAGGTTTCCTTAAACTGGTCTATCCCAACATTTTTCAAAGGTTGCCTTAGACAGGT
1 CCTTTTTAAAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAGGT
93842063 CTATCCCAA
66 CTATCCCAA
* ** **
93842072 CCTTTTTTAAAA-GTTGCTTTAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGATTG
1 CC-TTTTTAAAAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAG
93842136 GTCTATCCCAA
64 GTCTATCCCAA
* * *
93842147 CCTTTTTAAAAGGTTGCCTTAGACAATGTCTATACCAACC--TATTTAAGGTTGCCTTAGA-TGA
1 CCTTTTTAAAAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAG-
*
93842209 TTCTATCCCAA
64 GTCTATCCCAA
* * * * *
93842220 TCTTTTTTAAAGGTTGCCTTAGACAATGTCTGTCCCAA-CTTTTTTTAAATGTTGTCTTAAGTA-
1 CCTTTTTAAAAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTTT-AAGGTTGCCTT-AG-AC
*
93842283 AGGTTTATCCCAA
62 AGGTCTATCCCAA
** ** *
93842296 CCTTTTTAAAAGGTTATCTTAGAACTGGTCTAGCCCAACC--TTTTTAAGGTTGCCTTAGACAGG
1 CCTTTTTAAAAGGTTGCCTTAG-ACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAGG
*
93842359 TCTATCACAA
65 TCTATCCCAA
* * * * *
93842369 CCTTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCCTTTTTAAAGGTTGGCCTT-GACT
1 CCTTTTTAAAAGGTT-GCCTTAGAC-AAGTCTATCCCAACCTTTTTTTAAGGTT-GCCTTAGAC-
*
93842432 AGGTCTTTCCCAA
62 AGGTCTATCCCAA
93842445 CC
1 CC
93842447 CTTCAGTAAG
Statistics
Matches: 371, Mismatches: 60, Indels: 35
0.80 0.13 0.08
Matches are distributed among these distances:
72 6 0.02
73 100 0.27
74 47 0.13
75 157 0.42
76 56 0.15
77 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (74 bp):
CCTTTTTAAAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAGGT
CTATCCCAA
Found at i:93842093 original size:112 final size:111
Alignment explanation
Indices: 93841923--93842446 Score: 492
Period size: 112 Copynumber: 4.7 Consensus size: 111
93841913 TCTATCCTTG
** * * * *
93841923 CCTTTTTTGAAGGTTGCCTTAAACAAGTCTATCCCAACCTTTTTTTAAGGTTGTTTTAGACAAGG
1 CCTTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTAAAGGTTGCTTTAGACAAGG
* * *
93841988 TCTATCCTAACATTTTTAAAAGGTTTCCTTAAACTGGTCTATCCCAA
65 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGGTCTATCCCAA
* *
93842035 CATTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAAGTTGCTTTAGACAAGG
1 CCTTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTAAAGGTTGCTTTAGACAAGG
* *
93842100 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGATTGGTCTATCCCAA
65 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGGTCTATCCCAA
* * * * * ** *
93842147 CCTTTTTAAAAGGTTGCCTTAGACAATGTCTATACCAACCTATTT-AAGGTTGCCTTAGATGA-T
1 CCTTTTTCAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTAAAGGTTGCTTTAGACAAGG
* * * *
93842210 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAT-GTCTGTCCCAA
65 TCTATCCCAACCTTTTTAAAAGGTTGCCTTA-A-ACTGGTCTATCCCAA
* * * * * *
93842258 CTTTTTTTAAATGTTGTCTTAAGTA-AGGTTTATCCCAACCTTTTTAAAAGGTT-ATCTTAGA-A
1 CCTTTTTCAAAGGTTGCCTT-AG-ACAGGTCTATCCCAACCTTTTT-AAAGGTTGCT-TTAGACA
* * * * *
93842320 CTGGTCTAGCCCAACCTTTTT--AAGGTTGCCTTAGACAGGTCTATCACAA
62 -AGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGGTCTATCCCAA
* * *
93842369 CCTTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCCTTTTTAAAGGTTGGCCTT-GACT
1 CCTTTTTCAAAGGTT-GCCTTAGAC-AGGTCTATCCCAA-CCTTTTTAAAGGTT-GCTTTAGACA
*
93842432 AGGTCTTTCCCAACC
62 AGGTCTATCCCAACC
93842447 CTTCAGTAAG
Statistics
Matches: 336, Mismatches: 58, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
109 1 0.00
110 31 0.09
111 110 0.33
112 154 0.46
113 25 0.07
114 15 0.04
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (111 bp):
CCTTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAAGGTTGCTTTAGACAAGGT
CTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGGTCTATCCCAA
Found at i:93842443 original size:149 final size:148
Alignment explanation
Indices: 93841923--93842446 Score: 580
Period size: 149 Copynumber: 3.5 Consensus size: 148
93841913 TCTATCCTTG
* * * * ** *
93841923 CCTTTTTTGAAGGTTGCCTTAAACAA-GTCTATCCCAACCTTTTTTTAAGGTTGTTTTAGACAAG
1 CCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCCTTTTTAAAGGTTGCCTTAGACTAG
* * *
93841987 GTCTATCCTAACATTTTTAAAAGGTTTCCTTA-AACTGGTCTATCCCAACATTTTTCAAAGGTTG
66 GTCTATCCCAACCTTTTTAAAAGGTTT-CTTAGAACTGGTCTATCCCAACCTTTTT--AAGGTTG
93842051 CCTTAGACAGGTCTATCCCAA
128 CCTTAGACAGGTCTATCCCAA
* * *
93842072 CCTTTTTTAAAAGTTGCTTTAGACAAGGTCTATCCCAA-CCTTTTTAAAAGGTTGCCTTAGA-TT
1 CCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCCTTTTT-AAAGGTTGCCTTAGACTA
* * * *
93842135 GGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAT-GTCTATACCAACCTATTTAAGGTTG
65 GGTCTATCCCAACCTTTTTAAAAGGTT-TCTTAGA-ACTGGTCTATCCCAACCTTTTTAAGGTTG
* *
93842199 CCTTAGA-TGATTCTATCCCAA
128 CCTTAGACAG-GTCTATCCCAA
* * * ** * * *
93842220 TCTTTTTTAAAGGTTGCCTTAGACAATGTCTGTCCCAACTTTTTTTAAATGTTGTCTTA-AGTAA
1 CCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCCTTTTTAAAGGTTGCCTTAGACT-A
* *
93842284 GGTTTATCCCAACCTTTTTAAAAGGTTATCTTAGAACTGGTCTAGCCCAACCTTTTTAAGGTTGC
65 GGTCTATCCCAACCTTTTTAAAAGGTT-TCTTAGAACTGGTCTATCCCAACCTTTTTAAGGTTGC
*
93842349 CTTAGACAGGTCTATCACAA
129 CTTAGACAGGTCTATCCCAA
* * *
93842369 CCTTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCCTTTTTAAAGGTTGGCCTT-GACT
1 CCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACCCTTTTTAAAGGTT-GCCTTAGACT
*
93842432 AGGTCTTTCCCAACC
64 AGGTCTATCCCAACC
93842447 CTTCAGTAAG
Statistics
Matches: 309, Mismatches: 52, Indels: 28
0.79 0.13 0.07
Matches are distributed among these distances:
147 2 0.01
148 71 0.23
149 183 0.59
150 51 0.17
151 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (148 bp):
CCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCCTTTTTAAAGGTTGCCTTAGACTAG
GTCTATCCCAACCTTTTTAAAAGGTTTCTTAGAACTGGTCTATCCCAACCTTTTTAAGGTTGCCT
TAGACAGGTCTATCCCAA
Found at i:93842449 original size:38 final size:37
Alignment explanation
Indices: 93841926--93842446 Score: 483
Period size: 38 Copynumber: 14.0 Consensus size: 37
93841916 ATCCTTGCCT
* * *
93841926 TTTTTGAAGGTTGCCTTAAAC-AAGTCTATCCCAACC
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACC
* ** * * *
93841962 TTTTTTTAAGGTTGTTTTAGACAAGGTCTATCCTAACA
1 -TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACC
* * *
93842000 TTTTTAAAAGGTTTCCTTAAACT-GGTCTATCCCAACA
1 TTTTT-AAAGGTTGCCTTAGACTAGGTCTATCCCAACC
93842037 TTTTTCAAAGGTTGCCTTAGAC-AGGTCTATCCCAACC
1 TTTTT-AAAGGTTGCCTTAGACTAGGTCTATCCCAACC
* * *
93842074 TTTTTTAAAAGTTGCTTTAGACAAGGTCTATCCCAACC
1 -TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACC
*
93842112 TTTTTAAAAGGTTGCCTTAGA-TTGGTCTATCCCAACC
1 TTTTT-AAAGGTTGCCTTAGACTAGGTCTATCCCAACC
* * *
93842149 TTTTTAAAAGGTTGCCTTAGACAATGTCTATACCAACC
1 TTTTT-AAAGGTTGCCTTAGACTAGGTCTATCCCAACC
* * *
93842187 TATTT-AAGGTTGCCTTAGA-T-GATTCTATCCCAATCT
1 TTTTTAAAGGTTGCCTTAGACTAG-GTCTATCCCAA-CC
* * * *
93842223 TTTTTAAAGGTTGCCTTAGACAATGTCTGTCCCAACTT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAAC-C
* * * *
93842261 TTTTTAAATGTTGTCTTA-AGTAAGGTTTATCCCAACC
1 TTTTTAAAGGTTGCCTTAGACT-AGGTCTATCCCAACC
** *
93842298 TTTTTAAAAGGTTATCTTAGAACT-GGTCTAGCCCAACC
1 TTTTT-AAAGGTTGCCTTAG-ACTAGGTCTATCCCAACC
*
93842336 TTTTT-AAGGTTGCCTTAGAC-AGGTCTATCACAACC
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACC
*
93842371 TTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCC
1 TTTTT-AAAGGTT-GCCTTAGACTAGGTCTATCCCAA-CC
*
93842410 TTTTTAAAGGTTGGCCTT-GACTAGGTCTTTCCCAACC
1 TTTTTAAAGGTT-GCCTTAGACTAGGTCTATCCCAACC
93842447 CTTCAGTAAG
Statistics
Matches: 401, Mismatches: 60, Indels: 46
0.79 0.12 0.09
Matches are distributed among these distances:
35 28 0.07
36 30 0.07
37 153 0.38
38 181 0.45
39 7 0.02
40 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACC
Found at i:93844955 original size:39 final size:39
Alignment explanation
Indices: 93844907--93844985 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
93844897 AAAATGTTTA
93844907 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
1 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
93844946 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
1 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
93844985 C
1 C
93844986 AAAGAGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (39 bp):
CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
Found at i:93850837 original size:41 final size:41
Alignment explanation
Indices: 93850738--93850947 Score: 180
Period size: 41 Copynumber: 5.1 Consensus size: 41
93850728 ACAAAAATTG
* * * * *
93850738 TAAAACACAGAGCAATAGCGGCG-TTTT-ATCAAAAATGCTGC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGC
93850779 T-AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
93850819 TAAAAAACGGAGCATTAGCGGCGCTTTTGGTAAAACGCTGC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * ***
93850860 TAAAAATCAGAGCATTAGCAGCGC-TTTACCAAAAGCGCCGC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAA-CGCCGC
* * * *
93850901 T-AAAAACAGGATCAATAGTGGCG-TTTGTGGTCAAAACGCCAC
1 TAAAAAACA-GAGCATTAGCGGCGCTTT-TGGT-AAAACGCCGC
93850943 TAAAA
1 TAAAA
93850948 GTCTCACAGA
Statistics
Matches: 137, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
40 41 0.30
41 81 0.59
42 8 0.06
43 7 0.05
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (41 bp):
TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:93851059 original size:37 final size:37
Alignment explanation
Indices: 93850987--93851060 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
93850977 CTCAAAAAAT
* *
93850987 CATAAACACTAATCTATAACCCCTAAAACAGTAAACC
1 CATAAACACTAAACTATAACCCCTAAAACACTAAACC
* * * *
93851024 CATAAACATTAAACTATTACCCTTAAAACCCTAAACC
1 CATAAACACTAAACTATAACCCCTAAAACACTAAACC
93851061 AGTTTATGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (37 bp):
CATAAACACTAAACTATAACCCCTAAAACACTAAACC
Found at i:93851743 original size:17 final size:17
Alignment explanation
Indices: 93851717--93851769 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
93851707 AATCTATATA
*
93851717 TTAAATAATTTCAAATT
1 TTAAAAAATTTCAAATT
*
93851734 TTAAAGAA-TTCAAATT
1 TTAAAAAATTTCAAATT
*
93851750 TTAAAAAAATTTCAAGTT
1 TT-AAAAAATTTCAAATT
93851768 TT
1 TT
93851770 CAAATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 10 0.32
17 12 0.39
18 9 0.29
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTCAAATT
Found at i:93851924 original size:18 final size:17
Alignment explanation
Indices: 93851887--93851921 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
93851877 TATATAAGTG
93851887 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
93851904 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
93851920 AT
1 AT
93851922 ATTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:93852282 original size:114 final size:115
Alignment explanation
Indices: 93852035--93852363 Score: 445
Period size: 114 Copynumber: 2.9 Consensus size: 115
93852025 ATTATGTATT
* * * * *
93852035 AAAC-AAAACGGAGCCGTTTTATTGGAT-TTGTTAGTGGCGTTTT-GCGCAAAACGCCGCAATAG
1 AAACAAAAACGGCGTCGTTTTATT--ATATTATTAGTGGCGTTTTGGGGCTAAACGCCGCAATAG
* * *
93852097 GTGCGTTTTTAGTGGCACC-AGTCTATAAACTCCGCTAAAGGTGATTTCGGTTA
64 GTGCGTTTTTAGCGGC-CCTAGGCTATAAACGCCGCT-AAGGTGATTTCGGTTA
* *
93852150 AAACAAAAATGGCGTCGTTTTGTTATATTATTAGTGGCGTTTTGGGGCTAAACGCCGCAATAGGT
1 AAACAAAAACGGCGTCGTTTTATTATATTATTAGTGGCGTTTTGGGGCTAAACGCCGCAATAGGT
*
93852215 GCG-TTTTAGCGGCCCTAGGGTATAAACGCCGCTAAGGTGATTTCGGTTA
66 GCGTTTTTAGCGGCCCTAGGCTATAAACGCCGCTAAGGTGATTTCGGTTA
* *
93852264 AAACAAAAACGGCGTCGTTTTATTATATTATTAGTGGCGTTTTGAGGCTAAACGCCACAATAGGT
1 AAACAAAAACGGCGTCGTTTTATTATATTATTAGTGGCGTTTTGGGGCTAAACGCCGCAATAGGT
* *
93852329 G-GTTTTTAGCGGCACTAGGTTATAAACGCCGCTAA
66 GCGTTTTTAGCGGCCCTAGGCTATAAACGCCGCTAA
93852364 TGTTAAATTA
Statistics
Matches: 192, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
113 1 0.01
114 112 0.58
115 42 0.22
116 37 0.19
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (115 bp):
AAACAAAAACGGCGTCGTTTTATTATATTATTAGTGGCGTTTTGGGGCTAAACGCCGCAATAGGT
GCGTTTTTAGCGGCCCTAGGCTATAAACGCCGCTAAGGTGATTTCGGTTA
Found at i:93856126 original size:33 final size:33
Alignment explanation
Indices: 93856080--93856142 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
93856070 ACCTCCAAAG
*
93856080 AAGAATGCTGAGGTTGATCTAGTTGCTTATAAT
1 AAGAATGCCGAGGTTGATCTAGTTGCTTATAAT
93856113 AAGAATGCCGAGGTTGATCTAGTTGCTTAT
1 AAGAATGCCGAGGTTGATCTAGTTGCTTAT
93856143 GTTTTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (33 bp):
AAGAATGCCGAGGTTGATCTAGTTGCTTATAAT
Found at i:93858726 original size:21 final size:20
Alignment explanation
Indices: 93858676--93858724 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
93858666 TTCTTTAAGA
*
93858676 TTTTATTATGGTTGACATTT
1 TTTTATTTTGGTTGACATTT
93858696 TTTTATTTTGGTTGACATTT
1 TTTTATTTTGGTTGACATTT
93858716 TTTTATTTT
1 TTTTATTTT
93858725 TGAGTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTTATTTTGGTTGACATTT
Done.