Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 182 of 349
Found at i:59085700 original size:16 final size:18
Alignment explanation
Indices: 59085669--59085701 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59085659 AACTCGTCAC
59085669 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
59085687 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
59085702 AGCTATATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:59088653 original size:43 final size:43
Alignment explanation
Indices: 59088600--59088683 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
59088590 TCCAAGATGA
* * * * *
59088600 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCATTATGT
1 GATTACGTGTAAGACCATCTCTGGAACATTGACATCATTATGT
*
59088643 GATTACGTGTAAGACCATCTCTGGAACATTGACATCGTTAT
1 GATTACGTGTAAGACCATCTCTGGAACATTGACATCATTAT
59088684 ATGACTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
GATTACGTGTAAGACCATCTCTGGAACATTGACATCATTATGT
Found at i:59105151 original size:27 final size:27
Alignment explanation
Indices: 59105120--59105297 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59105110 TAAATTGTAC
59105120 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59105147 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59105173 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59105201 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59105229 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59105256 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59105283 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59105298 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:59105234 original size:82 final size:81
Alignment explanation
Indices: 59105121--59105276 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59105111 AAATTGTACA
* *
59105121 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59105185 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59105202 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59105267 TGCGAGTTGA
65 TGCGAATTGA
59105277 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:59105288 original size:82 final size:81
Alignment explanation
Indices: 59105117--59105297 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59105107 GATTAAATTG
* *
59105117 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59105182 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59105198 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59105262 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59105280 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59105298 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:59113254 original size:27 final size:27
Alignment explanation
Indices: 59113223--59113400 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59113213 TAAATTGTAC
59113223 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59113250 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59113276 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59113304 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59113332 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59113359 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59113386 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59113401 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:59113337 original size:82 final size:81
Alignment explanation
Indices: 59113224--59113379 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59113214 AAATTGTACA
* *
59113224 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59113288 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59113305 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59113370 TGCGAGTTGA
65 TGCGAATTGA
59113380 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:59113391 original size:82 final size:81
Alignment explanation
Indices: 59113220--59113400 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59113210 GATTAAATTG
* *
59113220 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59113285 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59113301 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59113365 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59113383 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59113401 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:59119718 original size:18 final size:18
Alignment explanation
Indices: 59119695--59119733 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
59119685 ATTGTGAAAT
59119695 AAGAAAATTCTATTAGTA
1 AAGAAAATTCTATTAGTA
*
59119713 AAGAAAATTCTGTTAGTA
1 AAGAAAATTCTATTAGTA
59119731 AAG
1 AAG
59119734 GTACTGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (18 bp):
AAGAAAATTCTATTAGTA
Found at i:59128198 original size:22 final size:22
Alignment explanation
Indices: 59128159--59128261 Score: 143
Period size: 22 Copynumber: 4.5 Consensus size: 22
59128149 CATCTCGTAT
* *
59128159 GAGCTTACCGATTCAGCTCGATA
1 GAGCTTACTG-TTCAGCTCAATA
59128182 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
59128204 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
* *
59128226 GAGCTTACCGCTTTCAGCCCAATA
1 GAGCTTACTG--TTCAGCTCAATA
59128250 GAGCTTACTGTT
1 GAGCTTACTGTT
59128262 TATCAGCTCG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
22 44 0.60
23 9 0.12
24 20 0.27
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:59128257 original size:46 final size:44
Alignment explanation
Indices: 59128159--59128261 Score: 143
Period size: 46 Copynumber: 2.3 Consensus size: 44
59128149 CATCTCGTAT
* * * *
59128159 GAGCTTACCGATTCAGCTCGATAGAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATAGAGCTTACCGTTCAGCCCAATA
59128204 GAGCTTACTGTTCAGCTCAATAGAGCTTACCGCTTTCAGCCCAATA
1 GAGCTTACTGTTCAGCTCAATAGAGCTTACCG--TTCAGCCCAATA
59128250 GAGCTTACTGTT
1 GAGCTTACTGTT
59128262 TATCAGCTCG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 20 0.38
45 9 0.17
46 23 0.44
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
GAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTCAGCCCAATA
Found at i:59128502 original size:20 final size:20
Alignment explanation
Indices: 59128465--59128545 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
59128455 TAATAATAAG
*
59128465 ATATGTGTTTATATGGATGAA
1 ATAT-TGTTTATACGGATGAA
*
59128486 ATATTGTTGATACGGATGAA
1 ATATTGTTTATACGGATGAA
* *
59128506 TTATTG-TTATTACTGATGAA
1 ATATTGTTTA-TACGGATGAA
* *
59128526 CTATTATTTATACGGATGAA
1 ATATTGTTTATACGGATGAA
59128546 TTACTGGTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.04
20 41 0.82
21 7 0.14
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (20 bp):
ATATTGTTTATACGGATGAA
Found at i:59128565 original size:40 final size:40
Alignment explanation
Indices: 59128480--59128556 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
59128470 TGTTTATATG
* * *
59128480 GATGAAATATTGTTGATACGGATGAATTATTGTTATTACT
1 GATGAAATATTATTTATACGGATGAATTATGGTTATTACT
*
59128520 GATGAACTATTATTTATACGGATGAATTACTGGTTAT
1 GATGAAATATTATTTATACGGATGAATTA-TGGTTAT
59128557 GTGAATGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (40 bp):
GATGAAATATTATTTATACGGATGAATTATGGTTATTACT
Found at i:59128576 original size:40 final size:40
Alignment explanation
Indices: 59128480--59128578 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 40
59128470 TGTTTATATG
* * *
59128480 GATGAAATATTGTTGATACGGATGAATTATTGTTATTACT
1 GATGAAATATAGTTTATACGGATGAATTATGGTTATTACT
* *
59128520 GATGAACTATTA-TTTATACGGATGAATTACTGGTTA-T-GT
1 GATGAAATA-TAGTTTATACGGATGAATTA-TGGTTATTACT
*
59128559 GAATGAATTATAGTTTATAC
1 G-ATGAAATATAGTTTATAC
59128579 AAATAGAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
39 4 0.08
40 39 0.80
41 6 0.12
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (40 bp):
GATGAAATATAGTTTATACGGATGAATTATGGTTATTACT
Found at i:59131787 original size:20 final size:20
Alignment explanation
Indices: 59131762--59131815 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
59131752 AATAGGGGTC
59131762 ACATGCCCGTGTGGTTTGGG
1 ACATGCCCGTGTGGTTTGGG
59131782 ACATGCCCGTGTGGTTTGGG
1 ACATGCCCGTGTGGTTTGGG
**
59131802 ACACACCCGTGTGG
1 ACATGCCCGTGTGG
59131816 GCAAGCCCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.37, T:0.26
Consensus pattern (20 bp):
ACATGCCCGTGTGGTTTGGG
Found at i:59133741 original size:40 final size:40
Alignment explanation
Indices: 59133655--59133878 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
59133645 TATTCGGATG
*
59133655 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
59133696 ATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
59133736 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
59133777 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59133817 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
59133857 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
59133879 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 90 0.55
41 60 0.37
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:59133791 original size:81 final size:80
Alignment explanation
Indices: 59133654--59133878 Score: 328
Period size: 81 Copynumber: 2.8 Consensus size: 80
59133644 TTATTCGGAT
59133654 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
*
59133719 CATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
*
59133735 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGATAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
* *
59133800 CATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* * * * *
59133816 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CTATATCC-GGTTAAATCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGTTAAGTCCCGAAGG
59133879 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 14 0.11
80 16 0.12
81 102 0.77
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:59139850 original size:24 final size:24
Alignment explanation
Indices: 59139807--59139852 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
59139797 TGTGTTTTTC
*
59139807 AAGTATATGTTTGATAATATGATA
1 AAGTATATGTTTCATAATATGATA
59139831 AAGTCATATGTTTCAT-ATATGA
1 AAGT-ATATGTTTCATAATATGA
59139853 ACTCAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (24 bp):
AAGTATATGTTTCATAATATGATA
Found at i:59143653 original size:43 final size:43
Alignment explanation
Indices: 59143605--59143775 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
59143595 GTTATCAAGA
*
59143605 TGAGATTACATGTAAGACCATGCCTGGGACATTGGCATTGTAC
1 TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAC
* * *
59143648 TGAGATTTCATCTAAGACCATGTCTGGGACATTGGCATAAT-TAA
1 TGAGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAC
* * * * *
59143692 T-TGATTTCGTGTAAGA-CATTGTCTGGGACAGTGGCATCGATA-
1 TGAGATTACATGTAAGACCA-TGTCTGGGACATTGGCATTG-TAC
* * * *
59143734 TGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAC
1 TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAC
59143776 GAGCTTATGT
Statistics
Matches: 105, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 10 0.10
43 87 0.83
44 5 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAC
Found at i:59147303 original size:47 final size:47
Alignment explanation
Indices: 59147251--59147596 Score: 500
Period size: 47 Copynumber: 7.3 Consensus size: 47
59147241 TGTACAAGTA
* * *
59147251 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-AGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
59147298 TATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
59147347 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
59147394 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
59147441 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
59147488 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
59147535 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
59147582 TATAAATGTGATAAG
1 TATATATGTGATAAG
59147597 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 235 0.84
48 3 0.01
49 40 0.14
50 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:59147474 original size:22 final size:22
Alignment explanation
Indices: 59147447--59147568 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59147437 CATGTGTATG
59147447 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
59147469 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
59147494 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
59147516 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
59147541 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
59147563 TGTGAT
1 TGTGAT
59147569 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:59151437 original size:40 final size:40
Alignment explanation
Indices: 59151392--59151582 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
59151382 ATAACCACAA
* * * * *
59151392 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTC
*
59151432 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTC
* *
59151472 GCACAAATGCCTTCGGGCCTTAGCCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTC
* * *
59151512 GCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTC
*
59151552 GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
59151583 TCATTCAAAT
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 132 0.97
41 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTC
Found at i:59153682 original size:38 final size:38
Alignment explanation
Indices: 59153629--59153703 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
59153619 AATCCGAGTT
*
59153629 TAAAGACCCGCTGGCTATATGA-AGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATAT-ACAGAGATTATGTCCGGG
*
59153667 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGG
1 TAAAGACCCGATGGCTATATACAGAGATTATGTCCGG
59153704 ATTAAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGGCTATATACAGAGATTATGTCCGGG
Found at i:59153832 original size:40 final size:40
Alignment explanation
Indices: 59153757--59154037 Score: 392
Period size: 40 Copynumber: 7.1 Consensus size: 40
59153747 AGGTCTCGAC
59153757 GATG-ATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
59153795 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
59153835 GATGT-TACCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTAT-CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
59153875 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
59153915 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
59153955 GATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
59153994 GTTATATCCGGGCTAGGT-CCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
59154033 GATGT
1 GATGT
59154038 GTATTCGGCT
Statistics
Matches: 215, Mismatches: 23, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 4 0.02
39 68 0.32
40 142 0.66
41 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:59157408 original size:47 final size:47
Alignment explanation
Indices: 59157351--59157656 Score: 383
Period size: 47 Copynumber: 6.6 Consensus size: 47
59157341 ATTGATGTAC
* * *
59157351 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
59157398 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59157447 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59157494 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59157541 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGA--AATGTG-
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
59157585 -AGTGTATATATGTGATAAGGCCGAATGGCTAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59157631 AAGTGTATAAATGTGATAAGTCCGAA
1 AAGTGTATATATGTGATAAGGCCGAA
59157657 GGGCAATTGT
Statistics
Matches: 236, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.00
43 32 0.14
45 11 0.05
47 151 0.64
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:59157650 original size:137 final size:140
Alignment explanation
Indices: 59157351--59157656 Score: 381
Period size: 137 Copynumber: 2.2 Consensus size: 140
59157341 ATTGATGTAC
* * * * *
59157351 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGA
1 AAGTGTATA-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATAT-CGAGA
* *
59157416 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAAT
64 TAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAAT
59157481 GTGATGAATGTGA
128 GTGATGAATGTGA
* *
59157494 ACATGTGTAT-GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATAT-GAG
1 A-A-GTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTACATATATCGAG
* *
59157556 ATAAGGCCGAATGGCCAATGTGA-AATGTG-A-GTGTATATATGTGATAAGGCCGAATGGCTAAT
63 ATAAGGCCGAATGGCCAATGTGAGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAAT
* *
59157618 GTGATGGATGTGG
128 GTGATGAATGTGA
*
59157631 AAGTGTATAAATGTGATAAGTCCGAA
1 AAGTGTAT-AATGTGATAAGGCCGAA
59157657 GGGCAATTGT
Statistics
Matches: 143, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
135 6 0.04
136 1 0.01
137 54 0.38
138 1 0.01
139 6 0.04
141 25 0.17
143 43 0.30
144 2 0.01
145 5 0.03
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (140 bp):
AAGTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATATCGAGATA
AGGCCGAATGGCCAATGTGAGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTG
ATGAATGTGA
Found at i:59161488 original size:40 final size:40
Alignment explanation
Indices: 59161423--59161634 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 40
59161413 TCTTCGGAAT
* * * *
59161423 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
59161462 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
59161502 TTAGCCCGGAT-ATATCAACTCGCACAAAATGCCTTCGGGCC
1 TTAGCCCGGATAAAATC-ACTAGCAC-AAATGCCTTCGGGTC
*
59161543 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
59161583 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
59161623 TTAGCCCGGATA
1 TTAGCCCGGATA
59161635 TCATTCAAAT
Statistics
Matches: 149, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.03
40 109 0.73
41 31 0.21
42 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:59161551 original size:81 final size:80
Alignment explanation
Indices: 59161427--59161634 Score: 240
Period size: 81 Copynumber: 2.6 Consensus size: 80
59161417 CGGAATTTAG
* * * * * * * * *
59161427 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAAT
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAAGC-ACTAGCACAAAT
*
59161491 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAAC
* * * * *
59161507 CCGGAT-ATATCAACTCGCACAAAATGCCTTCGGGCCTTAGCCCGGATAAAATCACTAGCATAAA
1 CCGGATAAAATC-ACTAGCAC-AAATGCCTTCGGGACTTAGCCCGGATAAAAGCACTAGCACAAA
59161571 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTCTTAAC
59161588 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
59161635 TCATTCAAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.02
80 38 0.36
81 60 0.56
82 7 0.07
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (80 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAAGCACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:59163735 original size:38 final size:38
Alignment explanation
Indices: 59163682--59163756 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
59163672 ATCCGAGTTT
*
59163682 TAAAGACCCGCTGGCTATATGA-AGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATAT-ACAGAGATTATGTCCGGG
*
59163720 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGG
1 TAAAGACCCGATGGCTATATACAGAGATTATGTCCGG
59163757 ATTAAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGGCTATATACAGAGATTATGTCCGGG
Found at i:59163869 original size:40 final size:40
Alignment explanation
Indices: 59163810--59164172 Score: 523
Period size: 40 Copynumber: 9.1 Consensus size: 40
59163800 AGGTCTCGAC
59163810 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
59163849 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
59163889 GATGTATACGTGCTAAGTCCCAAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
59163929 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
59163969 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
59164009 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
59164049 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
59164089 GATATATCTGTGCTAA-ACCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
59164128 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
59164168 GATGT
1 GATGT
59164173 GTATTCGGGC
Statistics
Matches: 291, Mismatches: 31, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
39 36 0.12
40 255 0.88
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:59167563 original size:47 final size:47
Alignment explanation
Indices: 59167506--59167762 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
59167496 ATTGATGTAC
* * *
59167506 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
59167553 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59167602 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59167649 ACA-TGTGTATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
59167696 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
59167743 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
59167763 TCCCGAAGGG
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
46 1 0.01
47 152 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:59167640 original size:22 final size:22
Alignment explanation
Indices: 59167613--59167734 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59167603 CATGTGTATG
59167613 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
59167635 TGTGATGAATG-TGAACATGTG-TATA
1 TGTGAT-AAGGCCG-A-ATG-GCCA-A
*
59167660 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
59167682 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
59167707 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
59167729 TGTGAT
1 TGTGAT
59167735 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 22 0.31
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:59170871 original size:6 final size:6
Alignment explanation
Indices: 59170841--59170957 Score: 62
Period size: 6 Copynumber: 19.0 Consensus size: 6
59170831 AAGAAACATT
* * * *
59170841 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACATA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
59170890 ATCAGA ATCAAA ATCAGA ATTA-A GTGACAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
*
59170941 AT-AGA ATCAGA ACCAGA
1 ATCAGA ATCAGA ATCAGA
59170958 GTGTGAATGC
Statistics
Matches: 83, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
5 7 0.08
6 65 0.78
7 6 0.07
8 5 0.06
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:59170899 original size:31 final size:31
Alignment explanation
Indices: 59170862--59170937 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
59170852 AATCAAAATG
* *
59170862 AGAATCAGAATCAGAATCAGGTGACATAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
* *
59170893 AGAATCAAAATCAGAATTAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
*
59170924 AGAATCAGTATCAG
1 AGAATCAGAATCAG
59170938 GTAATAGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:59171605 original size:27 final size:27
Alignment explanation
Indices: 59171573--59171793 Score: 203
Period size: 27 Copynumber: 8.2 Consensus size: 27
59171563 GGGGCAAAAT
* * *
59171573 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
59171600 GATAATTCTACACTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59171627 GGTATTTCTACCGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59171654 GGTAATTCTACCCTA-TAGCGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
59171681 AGTAATTCTACCCTAC-AGCGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * * *
59171708 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
59171735 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
59171762 AATAATTTTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
59171789 AGTAA
1 GGTAA
59171794 CTTGGTAAAC
Statistics
Matches: 167, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 164 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:59171645 original size:54 final size:54
Alignment explanation
Indices: 59171574--59171793 Score: 255
Period size: 54 Copynumber: 4.1 Consensus size: 54
59171564 GGGCAAAATG
* * * * *
59171574 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACACTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * * *
59171628 GTATTTCTACCGTACAAGGGTATTTCGGTAATTCTACCCTATAGCGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
59171682 GTAATTCTACCCTAC-AGCGGTATTT-TAGTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAG-GGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCA
* * * *
59171736 GTAATTCTACCCTACAGGGGTATTTCAATAATTTTACCCTACAGGGGTACTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
59171790 GTAA
1 GTAA
59171794 CTTGGTAAAC
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.01
54 136 0.97
55 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:59171717 original size:81 final size:81
Alignment explanation
Indices: 59171574--59171793 Score: 253
Period size: 81 Copynumber: 2.7 Consensus size: 81
59171564 GGGCAAAATG
* * * * * * *
59171574 GTAATTTTACCCCACAAG-GGTATCTCGATAATTCTACACTACAGGGGTATTTCGGTATTTCTAC
1 GTAATTCTACCCTAC-AGCGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
* *
59171638 CGTACAAGGGTATTTCG
65 CCTACAAGGGTATTTCA
* * * *
59171655 GTAATTCTACCCTATAGCGGTATTTCAGTAATTCTACCCTACAGCGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
* * *
59171720 CTATAGGGGTATTTTA
66 CTACAAGGGTATTTCA
* * *
59171736 GTAATTCTACCCTACAGGGGTATTTCAATAATTTTACCCTACAGGGGTACTTCAGTAA
1 GTAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAA
59171794 CTTGGTAAAC
Statistics
Matches: 115, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
80 2 0.02
81 113 0.98
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTCA
Found at i:59174762 original size:21 final size:21
Alignment explanation
Indices: 59174738--59174804 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
59174728 TGTAATCTCA
59174738 CAACCTCAAAGATTTATAACT
1 CAACCTCAAAGATTTATAACT
*** *
59174759 CAA-CT--AAGCCGTGTAATCT
1 CAACCTCAAAGATTTATAA-CT
59174778 CACAACCTCAAAGATTTATAACT
1 C--AACCTCAAAGATTTATAACT
59174801 CAAC
1 CAAC
59174805 TAACTTATCA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 7 0.22
19 3 0.09
20 2 0.06
21 8 0.25
22 2 0.06
23 3 0.09
24 7 0.22
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.25
Consensus pattern (21 bp):
CAACCTCAAAGATTTATAACT
Found at i:59174774 original size:42 final size:42
Alignment explanation
Indices: 59174727--59174807 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
59174717 TAAGTACGCT
59174727 GTGTAATCTCACAACCTCAAAGATTTATAACTCAACTAAGCC
1 GTGTAATCTCACAACCTCAAAGATTTATAACTCAACTAAGCC
59174769 GTGTAATCTCACAACCTCAAAGATTTATAACTCAACTAA
1 GTGTAATCTCACAACCTCAAAGATTTATAACTCAACTAA
59174808 CTTATCAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.27
Consensus pattern (42 bp):
GTGTAATCTCACAACCTCAAAGATTTATAACTCAACTAAGCC
Found at i:59174802 original size:23 final size:23
Alignment explanation
Indices: 59174734--59174802 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 23
59174724 GCTGTGTAAT
59174734 CTCACAACCTCAAAGATTTATAA
1 CTCACAACCTCAAAGATTTATAA
*** *
59174757 CT--CAA-CT--AAGCCGTGTAA
1 CTCACAACCTCAAAGATTTATAA
59174775 TCTCACAACCTCAAAGATTTATAA
1 -CTCACAACCTCAAAGATTTATAA
59174799 CTCA
1 CTCA
59174803 ACTAACTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 7 0.22
19 2 0.06
20 2 0.06
21 6 0.19
22 2 0.06
23 6 0.19
24 7 0.22
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (23 bp):
CTCACAACCTCAAAGATTTATAA
Found at i:59174978 original size:34 final size:34
Alignment explanation
Indices: 59174940--59175057 Score: 117
Period size: 34 Copynumber: 3.6 Consensus size: 34
59174930 ATTATAGACG
59174940 ATCTATTATTGCATAAATTTTTCGGTGACTTCCA
1 ATCTATTATTGCATAAATTTTTCGGTGACTTCCA
59174974 ATCTATTATTGC----ATTTTTCGGTGAC-T-CA
1 ATCTATTATTGCATAAATTTTTCGGTGACTTCCA
* * * *
59175002 AACT-TAACCT-CAGAAACATTTTTCGGTGACTTCCA
1 ATCTATTA-TTGCA-TAA-ATTTTTCGGTGACTTCCA
59175037 ATCTATTATTGCATAAATTTT
1 ATCTATTATTGCATAAATTTT
59175058 GCTCGGATCA
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
27 3 0.05
28 6 0.09
29 1 0.02
30 13 0.20
33 13 0.20
34 18 0.27
35 8 0.12
36 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (34 bp):
ATCTATTATTGCATAAATTTTTCGGTGACTTCCA
Found at i:59174992 original size:30 final size:30
Alignment explanation
Indices: 59174956--59175050 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 30
59174946 TATTGCATAA
59174956 ATTTTTCGGTGACTTCCAATCTATTATTGC
1 ATTTTTCGGTGACTTCCAATCTATTATTGC
* * *
59174986 ATTTTTCGGTGAC-T-CAAACT-TAACCTCAGAAAC
1 ATTTTTCGGTGACTTCCAATCTATTA--T-TG---C
59175019 ATTTTTCGGTGACTTCCAATCTATTATTGC
1 ATTTTTCGGTGACTTCCAATCTATTATTGC
59175049 AT
1 AT
59175051 AAATTTTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 2 0.04
30 17 0.34
33 15 0.30
34 2 0.04
35 5 0.10
36 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (30 bp):
ATTTTTCGGTGACTTCCAATCTATTATTGC
Found at i:59176583 original size:49 final size:49
Alignment explanation
Indices: 59176528--59176623 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
59176518 TGTTGCGTAA
59176528 TGTAATATGAATTGACAGTAAAAGACCATGGTTAGACCATGGCAATGTG
1 TGTAATATGAATTGACAGTAAAAGACCATGGTTAGACCATGGCAATGTG
59176577 TGTAATATGAATTGACAGTAAAAGACCATGGTTAGACCATGGCAATG
1 TGTAATATGAATTGACAGTAAAAGACCATGGTTAGACCATGGCAATG
59176624 AGCTAAGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (49 bp):
TGTAATATGAATTGACAGTAAAAGACCATGGTTAGACCATGGCAATGTG
Found at i:59176747 original size:82 final size:81
Alignment explanation
Indices: 59176610--59176799 Score: 298
Period size: 82 Copynumber: 2.4 Consensus size: 81
59176600 GACCATGGTT
*
59176610 AGACCATGGCAATGAGCTAAGTGAAATAAGTGATTCACATGTAAGACCATATCTAGGATATGGCA
1 AGACCATGGCAATGTGCTAAGTGAAATAAGTGATTCACATGTAAGACCATATCTAGGAT-TGGCA
*
59176675 TTGTCCTAACTGAAATA
65 TCGTCCTAACTGAAATA
*
59176692 AGACCATAGCAATGTGCTAAGTGAAATAAGTGATTCACATGTAAGACCATATCTAGGATTGGCAT
1 AGACCATGGCAATGTGCTAAGTGAAATAAGTGATTCACATGTAAGACCATATCTAGGATTGGCAT
* *
59176757 CGTGCTAAGTGAAATA
66 CGTCCTAACTGAAATA
59176773 AGACCATGGC-AT-T--TAAGTGAAATAAGT
1 AGACCATGGCAATGTGCTAAGTGAAATAAGT
59176800 TCAAGGCAAC
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
77 14 0.14
79 1 0.01
80 2 0.02
81 28 0.27
82 57 0.56
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (81 bp):
AGACCATGGCAATGTGCTAAGTGAAATAAGTGATTCACATGTAAGACCATATCTAGGATTGGCAT
CGTCCTAACTGAAATA
Found at i:59176783 original size:28 final size:27
Alignment explanation
Indices: 59176751--59176952 Score: 170
Period size: 28 Copynumber: 7.6 Consensus size: 27
59176741 TATCTAGGAT
*
59176751 TGGCATCGTGCTAAGTGAAATAAGACCA
1 TGGCAT-GTGCTAAGTGAAATAAGTCCA
*
59176779 TGGCAT-T--TAAGTGAAATAAGTTCA
1 TGGCATGTGCTAAGTGAAATAAGTCCA
* * *
59176803 AGGCAACGTGCTAAGTGAAATAAGACCA
1 TGGC-ATGTGCTAAGTGAAATAAGTCCA
59176831 TGGCA--T-CTAAGTGAAATAAGTCCA
1 TGGCATGTGCTAAGTGAAATAAGTCCA
** * * *
59176855 ACGCAACGGGCTAAGTGAAATAAGACCA
1 TGGC-ATGTGCTAAGTGAAATAAGTCCA
*
59176883 TGG--TAT-CTAAGTGAAATAAGTCCA
1 TGGCATGTGCTAAGTGAAATAAGTCCA
* *
59176907 TGGCAATTTGCTAAGTAAAATAAGTCCA
1 TGGC-ATGTGCTAAGTGAAATAAGTCCA
*
59176935 TGGTATGGTGCTAAGTGA
1 TGGCAT-GTGCTAAGTGA
59176953 GAAATTTCTC
Statistics
Matches: 138, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
24 57 0.41
25 3 0.02
26 2 0.01
27 5 0.04
28 71 0.51
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (27 bp):
TGGCATGTGCTAAGTGAAATAAGTCCA
Found at i:59176794 original size:24 final size:24
Alignment explanation
Indices: 59176761--59176911 Score: 140
Period size: 24 Copynumber: 6.0 Consensus size: 24
59176751 TGGCATCGTG
59176761 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGACCATGGCAT
* ** *
59176785 TTAAGTGAAATAAGTTCAAGGCAACGT
1 CTAAGTGAAATAAGACCATGGC-A--T
59176812 GCTAAGTGAAATAAGACCATGGCAT
1 -CTAAGTGAAATAAGACCATGGCAT
* ** *
59176837 CTAAGTGAAATAAGTCCAACGCAACGGG
1 CTAAGTGAAATAAGACCATGGC-A---T
*
59176865 CTAAGTGAAATAAGACCATGGTAT
1 CTAAGTGAAATAAGACCATGGCAT
*
59176889 CTAAGTGAAATAAGTCCATGGCA
1 CTAAGTGAAATAAGACCATGGCA
59176912 ATTTGCTAAG
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
24 58 0.58
25 3 0.03
27 3 0.03
28 36 0.36
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (24 bp):
CTAAGTGAAATAAGACCATGGCAT
Found at i:59176940 original size:52 final size:52
Alignment explanation
Indices: 59176752--59176937 Score: 273
Period size: 52 Copynumber: 3.6 Consensus size: 52
59176742 ATCTAGGATT
* * *
59176752 GGCATCGTGCTAAGTGAAATAAGACCATGGCATTTAAGTGAAATAAGTTCAA
1 GGCAACGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCAA
59176804 GGCAACGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCAA
1 GGCAACGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCAA
* * * *
59176856 CGCAACGGGCTAAGTGAAATAAGACCATGGTATCTAAGTGAAATAAGTCCAT
1 GGCAACGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCAA
** * *
59176908 GGCAATTTGCTAAGTAAAATAAGTCCATGG
1 GGCAACGTGCTAAGTGAAATAAGACCATGG
59176938 TATGGTGCTA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (52 bp):
GGCAACGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCAA
Found at i:59177034 original size:51 final size:51
Alignment explanation
Indices: 59176971--59177146 Score: 244
Period size: 51 Copynumber: 3.5 Consensus size: 51
59176961 TCAGTTGAAC
* *
59176971 CTTTGTGAATATAATAGCTTTAGACAAAAGTGTGGTACTATGTGAAGGCCA
1 CTTTGTGAATAAAATAGCTTTGGACAAAAGTGTGGTACTATGTGAAGGCCA
* * * * * * *
59177022 CTATGTGAATATAATAGCTTTGGACATAGGTGCGGTACTAAGTGATGGCCA
1 CTTTGTGAATAAAATAGCTTTGGACAAAAGTGTGGTACTATGTGAAGGCCA
* *
59177073 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAA
1 CTTTGTGAATAAAATAGCTTTGGACAAAAGTGTGGTACTATGTGAAGGCCA
*
59177124 CTTTGTGGATAAAATAGCTTTGG
1 CTTTGTGAATAAAATAGCTTTGG
59177147 CTACAAGGGT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
CTTTGTGAATAAAATAGCTTTGGACAAAAGTGTGGTACTATGTGAAGGCCA
Found at i:59177153 original size:51 final size:50
Alignment explanation
Indices: 59176971--59177175 Score: 234
Period size: 51 Copynumber: 4.0 Consensus size: 50
59176961 TCAGTTGAAC
* * *
59176971 CTTTGTGAATATAATAGCTTTAGACAAAAGTGTGGTACTATGTGAAGGCCA
1 CTTTGTGAATAAAATAGCTTT-GGCACAAGTGTGGTACTATGTGAAGGCCA
* * * * *
59177022 CTATGTGAATATAATAGCTTTGG-ACATAGGTGCGGTACTAAGTGATGGCCA
1 CTTTGTGAATAAAATAGCTTTGGCACA-A-GTGTGGTACTATGTGAAGGCCA
*
59177073 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAA
1 CTTTGTGAATAAAATAGCTTTGG-CACAAGTGTGGTACTATGTGAAGGCCA
* * * *
59177124 CTTTGTGGATAAAATAGCTTTGGCTACAAGGGTGGTA-TATGTTAAAGCCA
1 CTTTGTGAATAAAATAGCTTTGGC-ACAAGTGTGGTACTATGTGAAGGCCA
59177174 CT
1 CT
59177176 GCGTATGTAA
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.02
50 15 0.11
51 111 0.84
52 1 0.01
53 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (50 bp):
CTTTGTGAATAAAATAGCTTTGGCACAAGTGTGGTACTATGTGAAGGCCA
Found at i:59177825 original size:17 final size:18
Alignment explanation
Indices: 59177803--59177836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59177793 GACCTTAGCC
59177803 CATTAT-AGAATAAGAAA
1 CATTATCAGAATAAGAAA
*
59177820 CATTATCAGAATTAGAA
1 CATTATCAGAATAAGAA
59177837 CCAAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (18 bp):
CATTATCAGAATAAGAAA
Found at i:59177854 original size:6 final size:6
Alignment explanation
Indices: 59177824--59178096 Score: 242
Period size: 6 Copynumber: 45.3 Consensus size: 6
59177814 AAGAAACATT
* * * *
59177824 ATCAGA ATTAGA ACCAAA ATAAGA ATCAGA ATCAGA ATCAGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA
* * *
59177872 ATCAGA ATCAAA ATCA-A TATTAGTA A-CAGA ATCAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA -ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
59177920 ATTAG- GTGACAGA ATCAGA ATCAGA ATCAGTA A-CAGA ATCAGA ATCAGT
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA
* * *
59177969 ATTAGTA A-CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
59178018 ATCAG- ATCAGTA A-CAGA ATCAGA ATCAGT ATTAGTA A-CAGA ATCAGA
1 ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA
59178065 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
59178097 GTGAATGCGA
Statistics
Matches: 217, Mismatches: 29, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
5 20 0.09
6 182 0.84
7 12 0.06
8 3 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:59177945 original size:85 final size:85
Alignment explanation
Indices: 59177845--59178084 Score: 316
Period size: 85 Copynumber: 2.9 Consensus size: 85
59177835 AACCAAAATA
**
59177845 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAA-CAGAATCAGAA
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATAACAG-AATCAGAATCAGAA
*
59177909 TTAGAATCAGAATTAGGTGAC
65 TCAGAATCAGAATTAGGTGAC
** * *
59177930 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATAACAGAATCAGAATCAGAAT
59177995 CAGAATCAGAATTAGGT---
66 CAGAATCAGAATTAGGTGAC
** * *
59178012 -G-A-CAGAATCAG-ATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATAACAGAATCAGAATCAGAAT
59178073 CAGAATCAGAAT
66 CAGAATCAGAAT
59178085 CAGAATCAGA
Statistics
Matches: 147, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
78 62 0.42
79 9 0.06
80 1 0.01
81 1 0.01
84 2 0.01
85 72 0.49
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATAACAGAATCAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:59178284 original size:27 final size:27
Alignment explanation
Indices: 59178214--59178295 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
59178204 AGCATGGCTG
* *
59178214 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
59178240 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
59178267 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
59178294 CC
1 CC
59178296 TAACAGAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:59178500 original size:22 final size:22
Alignment explanation
Indices: 59178452--59178510 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
59178442 GTAAATACGT
*
59178452 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
59178474 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
59178496 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
59178511 TAATAAAGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:59178637 original size:27 final size:26
Alignment explanation
Indices: 59178598--59178680 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
59178588 TCAATCGGTC
* *
59178598 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
59178624 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
59178651 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
59178678 AAC
1 AAC
59178681 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:59178909 original size:27 final size:27
Alignment explanation
Indices: 59178879--59179075 Score: 126
Period size: 27 Copynumber: 7.3 Consensus size: 27
59178869 GGGGCAAAAT
*
59178879 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * *
59178906 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* *
59178933 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATCTC
* * * * * *
59178960 GATAATTCTACTCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
59178987 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * * * *
59179014 AGTAGTTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
** * * *
59179041 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
*
59179068 AGTAATTT
1 GGTAATTT
59179076 CACAATCAAG
Statistics
Matches: 138, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
26 3 0.02
27 132 0.96
28 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATCTC
Found at i:59178926 original size:54 final size:53
Alignment explanation
Indices: 59178878--59179074 Score: 180
Period size: 54 Copynumber: 3.7 Consensus size: 53
59178868 AGGGGCAAAA
* * *
59178878 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
* * * *
59178931 TCGGT-ATTTCTACCCTACAAGGGTATTTTGATAATTCTACTCTACAGGGGTATTT
1 T-GGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGG-AATT
* * * * * * *
59178986 TGGTAATTCTATCCTATAAGGGTATTTCAGTAGTTCTACCCTATAGGGGTATT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
** * * *
59179039 TCGAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 T-GGTAATTTTACCCTACAAGGGTATTTCGGTAATT
59179075 TCACAATCAA
Statistics
Matches: 115, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 8 0.07
54 101 0.88
55 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (53 bp):
TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
Found at i:59179023 original size:81 final size:81
Alignment explanation
Indices: 59178882--59179074 Score: 242
Period size: 81 Copynumber: 2.4 Consensus size: 81
59178872 GCAAAATGGT
* * * * * * *
59178882 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAGTTCTACCCT
* *
59178947 ACAAGGGTATTTTGAT
66 ACAAGGGTATTTCGAA
* * * *
59178963 AATTCTACTCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAGTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAGTTCTACCCT
* *
59179028 ATAGGGGTATTTCGAA
66 ACAAGGGTATTTCGAA
*
59179044 AATTCTACCCTACAGGGGTATTTCAGTAATT
1 AATTCTACCCTACAGGGGTATTTCGGTAATT
59179075 TCACAATCAA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAGTTCTACCCT
ACAAGGGTATTTCGAA
Found at i:59179109 original size:27 final size:27
Alignment explanation
Indices: 59179079--59179650 Score: 731
Period size: 27 Copynumber: 21.2 Consensus size: 27
59179069 GTAATTTCAC
*
59179079 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59179106 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59179133 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
59179160 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59179187 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59179214 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59179241 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
59179268 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59179295 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
59179322 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
59179349 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
59179376 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59179403 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
59179430 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59179457 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
59179484 AATCGAGGGTAAAATGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59179511 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59179538 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * **
59179565 AATCGAGGGTAAAACAATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59179592 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59179619 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59179646 AATCG
1 AATCG
59179651 GGAGTACTTT
Statistics
Matches: 474, Mismatches: 61, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 464 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:59181960 original size:13 final size:12
Alignment explanation
Indices: 59181932--59181960 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
59181922 TGTGCCCCTG
59181932 TTTTTCATGAAA
1 TTTTTCATGAAA
59181944 TTTTTCATGAAA
1 TTTTTCATGAAA
59181956 TTTTT
1 TTTTT
59181961 AAAAGTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TTTTTCATGAAA
Found at i:59186983 original size:49 final size:49
Alignment explanation
Indices: 59186928--59187026 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
59186918 TTGTTGCGTA
59186928 GTGTAATATGAATTGATAGTAAAAGACCATGGTTAGACCATGGCAATGT
1 GTGTAATATGAATTGATAGTAAAAGACCATGGTTAGACCATGGCAATGT
59186977 GTGTAATATGAATTGATAGTAAAAGACCATGGTTAGACCATGGCAATGT
1 GTGTAATATGAATTGATAGTAAAAGACCATGGTTAGACCATGGCAATGT
59187026 G
1 G
59187027 CTAAGTGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.28
Consensus pattern (49 bp):
GTGTAATATGAATTGATAGTAAAAGACCATGGTTAGACCATGGCAATGT
Found at i:59187114 original size:24 final size:27
Alignment explanation
Indices: 59187081--59187205 Score: 154
Period size: 24 Copynumber: 4.8 Consensus size: 27
59187071 TGGCATCGTG
*
59187081 CTAAGTGAAATAAGACCATGGC-AT-T
1 CTAAGTGAAATAAGTCCATGGCAATGT
*
59187106 -TAAGTGAAATAAGTTCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGCAATGT
* *
59187132 GCTAAGTTAAATAAGACCATGGC-A--T
1 -CTAAGTGAAATAAGTCCATGGCAATGT
59187157 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGCAATGT
59187184 GCTAAGTGAAATAAGTCCATGG
1 -CTAAGTGAAATAAGTCCATGG
59187206 TATGGTGCTA
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
24 39 0.46
25 4 0.05
26 1 0.01
27 2 0.02
28 39 0.46
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (27 bp):
CTAAGTGAAATAAGTCCATGGCAATGT
Found at i:59187144 original size:52 final size:52
Alignment explanation
Indices: 59187070--59187205 Score: 220
Period size: 52 Copynumber: 2.6 Consensus size: 52
59187060 TATCTAGGAT
* *
59187070 ATGGC-ATCGTGCTAAGTGAAATAAGACCATGGCATTTAAGTGAAATAAGTTC
1 ATGGCAAT-GTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
59187122 ATGGCAATGTGCTAAGTTAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
59187174 ATGGCAATGTGCTAAGTGAAATAAGTCCATGG
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGG
59187206 TATGGTGCTA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 76 0.97
53 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:59187146 original size:28 final size:27
Alignment explanation
Indices: 59187070--59187220 Score: 179
Period size: 28 Copynumber: 5.7 Consensus size: 27
59187060 TATCTAGGAT
*
59187070 ATGGCATCGTGCTAAGTGAAATAAGACC
1 ATGGCAT-GTGCTAAGTGAAATAAGTCC
*
59187098 ATGGCAT-T--TAAGTGAAATAAGTTC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
* *
59187122 ATGGCAATGTGCTAAGTTAAATAAGACC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
59187150 ATGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
59187174 ATGGCAATGTGCTAAGTGAAATAAGTCC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
*
59187202 ATGGTATGGTGCTAAGTGA
1 ATGGCAT-GTGCTAAGTGA
59187221 GAAATTTCCC
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
24 39 0.37
25 4 0.04
26 2 0.02
27 4 0.04
28 57 0.54
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (27 bp):
ATGGCATGTGCTAAGTGAAATAAGTCC
Found at i:59187294 original size:51 final size:51
Alignment explanation
Indices: 59187239--59187443 Score: 286
Period size: 51 Copynumber: 4.0 Consensus size: 51
59187229 CCAGTTGAAC
* * *
59187239 CTTTGTGAATATAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGACA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* *
59187290 CTTTGTGAATATAATAGCTTTGGACACAAGTGTGGTACTAAGTGAAGGCCA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* *
59187341 CTTTGTGAATAAAATAGCTTTGGACACAAGCGTTGTACTATGTGAAGGCCA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* * * * *
59187392 TTTTGTGAATAAAATAGCTTTGG-CTACAAGGGTAGCACTATGTTAAGGCCA
1 CTTTGTGAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCA
59187443 C
1 C
59187444 CGTGTATCCG
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 139 0.99
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
Found at i:59197707 original size:53 final size:53
Alignment explanation
Indices: 59197526--59197780 Score: 250
Period size: 55 Copynumber: 4.8 Consensus size: 53
59197516 ATTAGGGTTT
* * * *
59197526 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTATAAGGC
* * * *
59197581 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-T-TTATAAGGC
* * *
59197636 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTTATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * * *
59197689 AAGGATACCATGTAAGACCATGTCAAGACATGGTAGTGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * * * *
59197738 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
59197781 GTACTTGCGT
Statistics
Matches: 169, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 38 0.22
52 6 0.04
53 45 0.27
54 9 0.05
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:59197732 original size:108 final size:110
Alignment explanation
Indices: 59197536--59197733 Score: 310
Period size: 108 Copynumber: 1.8 Consensus size: 110
59197526 AAGGATACCG
* *
59197536 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTATAAGGCAAGGAAACCATGTAAGACCA
*
59197601 TGTCAAGACATGGCATTGATAAGTTATTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAGTGATAAGTTATTATAAGGCAAAGGTCCCA
* * *
59197646 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-GTTTATAAGGCAAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTATAAGGCAAGGAAACCATGTAAGACCA
* *
59197709 TGTCAAGACATGGTAGTGGTAAGTT
66 TGTCAAGACATGGCAGTGATAAGTT
59197734 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 50 0.62
109 7 0.09
110 23 0.29
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTATAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAGTGATAAGTTATTATAAGGCAAAGGTCCCA
Found at i:59197875 original size:23 final size:24
Alignment explanation
Indices: 59197849--59197893 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
59197839 AAGGTAAGGT
* *
59197849 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAAACAAGTTCATGCTAAA
59197872 AAGGTAAAACAAGTTCATGCTA
1 AAGGTAAAACAAGTTCATGCTA
59197894 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (24 bp):
AAGGTAAAACAAGTTCATGCTAAA
Found at i:59199422 original size:43 final size:42
Alignment explanation
Indices: 59199359--59199522 Score: 197
Period size: 43 Copynumber: 3.9 Consensus size: 42
59199349 AGCTCGTACA
* * * *
59199359 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA-ATATCG
* * *
59199401 ATGCCAGTGTCCCAGACATGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA-ATATCG
59199444 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC--AATATCG
* *
59199487 ATGCCAATGTCCCAAACATGGTCTTACACATAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
59199523 CGTCTTGTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 96 0.91
44 3 0.03
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAATATCG
Found at i:59199522 original size:86 final size:85
Alignment explanation
Indices: 59199359--59199515 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 85
59199349 AGCTCGTACA
* * * * *
59199359 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCAGTGTCCCAGACATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACATGGTC
59199424 TTACACGAAATCATATAACG
66 TTACACGAAATCATATAACG
*
59199444 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTA-ATAT-GATGCCAATGTCCCAAACATG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATC--ACATATCGATGCCAATGTCCCAAACATG
59199507 GTCTTACAC
63 GTCTTACAC
59199516 ATAATCACGT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 5 0.08
86 53 0.84
87 4 0.06
88 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACATGGTC
TTACACGAAATCATATAACG
Found at i:59204841 original size:29 final size:29
Alignment explanation
Indices: 59204772--59204917 Score: 161
Period size: 29 Copynumber: 5.1 Consensus size: 29
59204762 ACCCCTACAT
*
59204772 ACATGCATATGGCCCA-CACGGCCCAA-TC
1 ACATTCATATGGCCCATCA-GGCCCAATTC
* * **
59204800 TCATTTATATGGCCTGTCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
59204829 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * *
59204858 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * * *
59204887 ACCTTTATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
59204916 AC
1 AC
59204918 CTTATATTCA
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
28 18 0.18
29 83 0.82
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:59210211 original size:46 final size:45
Alignment explanation
Indices: 59210118--59210203 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
59210108 TACATTTCAC
* * * *
59210118 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
59210164 GAACTCAGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
59210204 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:59214156 original size:29 final size:28
Alignment explanation
Indices: 59214086--59214231 Score: 150
Period size: 29 Copynumber: 5.1 Consensus size: 28
59214076 ACCCCTACAT
*
59214086 ACATGCATATGGCCCACTTA-GCCCAATC
1 ACATTCATATGGCCCA-TTAGGCCCAATC
* * *
59214114 TCATTTATATGGCCCGTTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAA-TC
*
59214143 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAA-TC
*
59214172 ATATTCATATGGCCCATTAGGCCCTAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* * **
59214201 ACCTTTATATGGCCTGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
59214230 AC
1 AC
59214232 CTTATATTCA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
27 3 0.03
28 18 0.18
29 76 0.77
30 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:59216076 original size:21 final size:19
Alignment explanation
Indices: 59216033--59216076 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
59216023 TTAATTGCAC
59216033 TTTAATTATTTTATAAAAA
1 TTTAATTATTTTATAAAAA
*
59216052 -TTAATTATTTTTTGACAAAA
1 TTTAATTATTTTAT-A-AAAA
59216072 TTTAA
1 TTTAA
59216077 CCGAATTCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.57
19 1 0.05
20 4 0.19
21 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTATTTTATAAAAA
Found at i:59220663 original size:46 final size:45
Alignment explanation
Indices: 59220613--59220788 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
59220603 ATGTTGGGCA
59220613 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
59220659 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
59220706 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
59220752 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59220789 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59220768 original size:93 final size:93
Alignment explanation
Indices: 59220609--59220781 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
59220599 TAGGATGTTG
* *
59220609 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59220674 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
59220702 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59220767 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
59220782 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59223718 original size:15 final size:15
Alignment explanation
Indices: 59223698--59223766 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
59223688 GTATCTTGGG
59223698 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
59223713 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
59223728 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
59223743 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
59223758 TTTCTTTAT
1 TTTCTTTAT
59223767 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:59223767 original size:30 final size:30
Alignment explanation
Indices: 59223689--59223776 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
59223679 CATAGTATCG
* * * *
59223689 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
59223719 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
59223749 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
59223777 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:59225766 original size:115 final size:115
Alignment explanation
Indices: 59225617--59225842 Score: 434
Period size: 115 Copynumber: 2.0 Consensus size: 115
59225607 GTTGCCATAG
59225617 AAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCTT
1 AAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCTT
59225682 TGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAAGTGTAAATAT
66 TGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAAGTGTAAATAT
59225732 AAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCTT
1 AAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCTT
* *
59225797 TGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAATTGTAA
66 TGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAAGTGTAA
59225843 TTTTTCCAAA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24
Consensus pattern (115 bp):
AAGGGAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCTT
TGGGGAAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAAGTGTAAATAT
Found at i:59226331 original size:46 final size:45
Alignment explanation
Indices: 59226277--59226451 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
59226267 TGTTTGGGCA
*
59226277 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** *** * *
59226323 TCTTAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
59226370 TCGGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
59226416 CCCGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATG
59226452 AGCGGGTTAC
Statistics
Matches: 99, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 60 0.61
47 29 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:59226432 original size:93 final size:93
Alignment explanation
Indices: 59226273--59226445 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
59226263 AGGATGTTTG
* * **
59226273 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTTAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59226338 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
59226366 GGCATCGGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGA-TCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGA-ACTCGTTGA
59226430 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
59226446 CTTATGAGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59228189 original size:29 final size:30
Alignment explanation
Indices: 59228135--59228192 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
59228125 CTTTTGAAAA
* *
59228135 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAATTTTTAT
59228165 TATTTACAAAAAGA-GCAACCAATTTTTA
1 TATTTACAAAAAGAGGCAACCAATTTTTA
59228193 AAAATACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAATTTTTAT
Found at i:59242991 original size:22 final size:22
Alignment explanation
Indices: 59242961--59243002 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59242951 TAGTGCAAAG
59242961 CAGTCTGGGCCTAAGCCCATAT
1 CAGTCTGGGCCTAAGCCCATAT
* *
59242983 CAGTGTGGGCCTTAGCCCAT
1 CAGTCTGGGCCTAAGCCCAT
59243003 TACAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.24
Consensus pattern (22 bp):
CAGTCTGGGCCTAAGCCCATAT
Found at i:59243883 original size:19 final size:18
Alignment explanation
Indices: 59243851--59243886 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59243841 CTGAGATCAA
59243851 CACAAGCGTGAACACGCT
1 CACAAGCGTGAACACGCT
*
59243869 CACATAGCGTTAACACGC
1 CACA-AGCGTGAACACGC
59243887 ACAGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.14
Consensus pattern (18 bp):
CACAAGCGTGAACACGCT
Found at i:59260424 original size:15 final size:16
Alignment explanation
Indices: 59260392--59260425 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59260382 ATTTCATCTC
59260392 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
59260408 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
59260423 ATT
1 ATT
59260426 AATTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:59263778 original size:18 final size:19
Alignment explanation
Indices: 59263743--59263779 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59263733 TGAATTGGCC
59263743 AAACAGGCCAGAATGGGCT
1 AAACAGGCCAGAATGGGCT
*
59263762 AAACAGGCCCG-ATGGGCT
1 AAACAGGCCAGAATGGGCT
59263780 GTTGGGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.11
Consensus pattern (19 bp):
AAACAGGCCAGAATGGGCT
Found at i:59263892 original size:28 final size:29
Alignment explanation
Indices: 59263852--59263932 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 29
59263842 CATGACTGTA
59263852 AATGTGATTTGGGCCTAGT-GGCCAAATG
1 AATGTGATTTGGGCCTAGTAGGCCAAATG
* * * *
59263880 AATGTGATTTGGGCCTAATGGGTCATATG
1 AATGTGATTTGGGCCTAGTAGGCCAAATG
* *
59263909 AAAGAGA-TTGGGCCTAGTAGGCCA
1 AATGTGATTTGGGCCTAGTAGGCCA
59263933 TATATATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 32 0.73
29 12 0.27
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAGTAGGCCAAATG
Found at i:59271398 original size:16 final size:16
Alignment explanation
Indices: 59271388--59271433 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
59271378 CGAAAAGCTG
59271388 AAATGCAGAAAAGCCA
1 AAATGCAGAAAAGCCA
59271404 AAATGCAGAAAAGCCA
1 AAATGCAGAAAAGCCA
*
59271420 AAATGCGGAAAAGC
1 AAATGCAGAAAAGC
59271434 TGAAAGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.54, C:0.17, G:0.22, T:0.07
Consensus pattern (16 bp):
AAATGCAGAAAAGCCA
Found at i:59272542 original size:39 final size:40
Alignment explanation
Indices: 59272441--59272664 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
59272431 TTGAATGATG
* *
59272441 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59272480 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
59272521 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59272560 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59272599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59272638 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59272665 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 78 0.48
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59272590 original size:78 final size:80
Alignment explanation
Indices: 59272441--59272664 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
59272431 TTGAATGATG
* * * * *
59272441 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
59272503 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
*
59272521 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
59272583 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * *
59272599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
59272664 G
66 G
59272665 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
78 36 0.29
79 55 0.44
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:59272696 original size:80 final size:79
Alignment explanation
Indices: 59272494--59272698 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
59272484 GGACTAAGAT
** * * * *
59272494 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTACGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTACGAGATACTA
*
59272558 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * * *
59272572 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTACGAGATACTA
*
59272636 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
59272652 CCGAAGGCATTTGAACGAG-TAGCTATTATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTA-AATCCGGGTTAAATCCCGAAGG
59272699 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 34 0.31
79 35 0.32
80 35 0.32
81 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:59279837 original size:39 final size:40
Alignment explanation
Indices: 59279737--59279960 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
59279727 TTGAATGATG
* *
59279737 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59279776 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
59279817 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59279856 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
59279895 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59279934 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59279961 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 74 0.46
40 75 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59279913 original size:79 final size:79
Alignment explanation
Indices: 59279737--59279993 Score: 249
Period size: 79 Copynumber: 3.3 Consensus size: 79
59279727 TTGAATGATG
* * * * * *
59279737 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
59279799 TTTGTGCGAGATACTAAT
63 TTTGTGCGAG-TACTAAA
* * * *
59279817 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATT
59279879 TGTGCGAGTTACTAAA
65 TGTGCGAG-TACTAAA
* *
59279895 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
** *
59279960 GAACGAGTAGCTATA
66 GTGCGAGTA-CTAAA
*
59279975 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTTCCGAAGG
59279994 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
78 35 0.23
79 72 0.47
80 45 0.29
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:59281488 original size:28 final size:28
Alignment explanation
Indices: 59281448--59281550 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 28
59281438 CATGACTGTA
59281448 AATGTGATTTGGGCCTAAT-GGCCAAATG
1 AATGTGA-TTGGGCCTAATAGGCCAAATG
* *
59281476 AATGTGATTTGGGCCTAATAGGCCACATA
1 AATGTGA-TTGGGCCTAATAGGCCAAATG
* * *
59281505 AATGTGAATGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATAGGCCAAATG
* *
59281533 AAAGGGATTGGGCCTAAT
1 AATGTGATTGGGCCTAAT
59281551 GGGTCATATA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 51 0.78
29 14 0.22
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATAGGCCAAATG
Found at i:59292399 original size:55 final size:55
Alignment explanation
Indices: 59292317--59292427 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
59292307 AAACGAATTA
* * *
59292317 TATTGTCATCACCAATGCTTAACCTTAAACCTGCAAATGATATATAATAATACAT
1 TATTGTCATCACCAATGCTTAACCTTAAACCTACAAATGAGATACAATAATACAT
59292372 TATTGTCATCACCAATGCTTAACCTTAAACCTACAAATGAGATACAATAATACAT
1 TATTGTCATCACCAATGCTTAACCTTAAACCTACAAATGAGATACAATAATACAT
59292427 T
1 T
59292428 TCCATGTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.32
Consensus pattern (55 bp):
TATTGTCATCACCAATGCTTAACCTTAAACCTACAAATGAGATACAATAATACAT
Found at i:59293235 original size:295 final size:295
Alignment explanation
Indices: 59292705--59293297 Score: 1186
Period size: 295 Copynumber: 2.0 Consensus size: 295
59292695 TATCGAAATA
59292705 ATATTTCATATACATATATTAATTATATAACCAAATATACCAAATCATATATACACATATATAAG
1 ATATTTCATATACATATATTAATTATATAACCAAATATACCAAATCATATATACACATATATAAG
59292770 GGTTATTCATGGCATACTAACTACTCATTCAATAAGCCAAATACACATCACATACATATATTTTC
66 GGTTATTCATGGCATACTAACTACTCATTCAATAAGCCAAATACACATCACATACATATATTTTC
59292835 TTTATTTGCATCTTACAAGATTTGTAACAAATAGCCAAGGTGTTTTCTTAACTTACCTCAAGTAA
131 TTTATTTGCATCTTACAAGATTTGTAACAAATAGCCAAGGTGTTTTCTTAACTTACCTCAAGTAA
59292900 GTAACAAGCTAGTTCATACTTGGCATATAGCTTGTTTTACACATTCGAACTCAATTTACCTTTTC
196 GTAACAAGCTAGTTCATACTTGGCATATAGCTTGTTTTACACATTCGAACTCAATTTACCTTTTC
59292965 CAGATGAACCATTCGAAATTGGATAGGACACTCGG
261 CAGATGAACCATTCGAAATTGGATAGGACACTCGG
59293000 ATATTTCATATACATATATTAATTATATAACCAAATATACCAAATCATATATACACATATATAAG
1 ATATTTCATATACATATATTAATTATATAACCAAATATACCAAATCATATATACACATATATAAG
59293065 GGTTATTCATGGCATACTAACTACTCATTCAATAAGCCAAATACACATCACATACATATATTTTC
66 GGTTATTCATGGCATACTAACTACTCATTCAATAAGCCAAATACACATCACATACATATATTTTC
59293130 TTTATTTGCATCTTACAAGATTTGTAACAAATAGCCAAGGTGTTTTCTTAACTTACCTCAAGTAA
131 TTTATTTGCATCTTACAAGATTTGTAACAAATAGCCAAGGTGTTTTCTTAACTTACCTCAAGTAA
59293195 GTAACAAGCTAGTTCATACTTGGCATATAGCTTGTTTTACACATTCGAACTCAATTTACCTTTTC
196 GTAACAAGCTAGTTCATACTTGGCATATAGCTTGTTTTACACATTCGAACTCAATTTACCTTTTC
59293260 CAGATGAACCATTCGAAATTGGATAGGACACTCGG
261 CAGATGAACCATTCGAAATTGGATAGGACACTCGG
59293295 ATA
1 ATA
59293298 ATCACACAAA
Statistics
Matches: 298, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
295 298 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (295 bp):
ATATTTCATATACATATATTAATTATATAACCAAATATACCAAATCATATATACACATATATAAG
GGTTATTCATGGCATACTAACTACTCATTCAATAAGCCAAATACACATCACATACATATATTTTC
TTTATTTGCATCTTACAAGATTTGTAACAAATAGCCAAGGTGTTTTCTTAACTTACCTCAAGTAA
GTAACAAGCTAGTTCATACTTGGCATATAGCTTGTTTTACACATTCGAACTCAATTTACCTTTTC
CAGATGAACCATTCGAAATTGGATAGGACACTCGG
Found at i:59299624 original size:30 final size:31
Alignment explanation
Indices: 59299548--59299625 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
59299538 CTCGACATAT
*
59299548 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
59299579 ACTGGGTCAAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
59299610 ACT-GGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
59299626 ACTGTAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 11 0.26
31 31 0.74
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:59299873 original size:25 final size:25
Alignment explanation
Indices: 59299845--59299914 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
59299835 CTCTTTTAAT
59299845 AACTGGGGCAAAG-CCTTTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
59299870 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
59299895 AACTGGGGTAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59299915 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 34 0.83
26 7 0.17
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:59300754 original size:27 final size:27
Alignment explanation
Indices: 59300724--59300788 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
59300714 GGGCATATTC
59300724 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
59300751 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
59300778 GTCTTTTTACC
1 GTCATTTTACC
59300789 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:59300790 original size:26 final size:28
Alignment explanation
Indices: 59300746--59300797 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
59300736 TACAAGGGTA
59300746 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
59300773 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
59300798 TATTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:59300970 original size:27 final size:27
Alignment explanation
Indices: 59300827--59301027 Score: 140
Period size: 27 Copynumber: 7.4 Consensus size: 27
59300817 TACAAGGGTG
* * *
59300827 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAATGGTA
* **
59300854 TTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAATGGTA
* * *
59300881 TTTCT-ATAATTTTTAGAAAGCCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-CCAATGGTA
* ** * *
59300910 TTTCT-ATAATTTTGTAAATC-AGGGTA
1 TTT-TGGTAATTTTACAAACCAATGGTA
**
59300936 TTTTGGTAATTTTACAAATTGAA-GGTA
1 TTTTGGTAATTTTACAAA-CCAATGGTA
* *
59300963 TTTCGGTAATTTCACAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAATGGTA
* **
59300990 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAATGGTA
59301017 TTTTGGTAATT
1 TTTTGGTAATT
59301028 CTATCCTACA
Statistics
Matches: 141, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 21 0.15
27 86 0.61
28 16 0.11
29 17 0.12
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAATGGTA
Found at i:59301099 original size:27 final size:27
Alignment explanation
Indices: 59301059--59301150 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
59301049 GTAATTTCAC
*
59301059 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAAGGTAAAACGGTAATTTTGTA
* *
59301086 AATTGAAGGTAAAATGGTAATTTTGTA
1 AATCGAAGGTAAAACGGTAATTTTGTA
* ** * *
59301113 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAAGGTAAAACGGTAATTTTGTA
*
59301140 AATCGAGGGTA
1 AATCGAAGGTA
59301151 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAAGGTAAAACGGTAATTTTGTA
Found at i:59302189 original size:31 final size:31
Alignment explanation
Indices: 59302154--59302356 Score: 343
Period size: 31 Copynumber: 6.5 Consensus size: 31
59302144 CGTTTACAGT
59302154 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
59302185 AAAGGCTTCGGTCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59302216 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
59302247 AAAGGCTTCAGCCCAGTGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59302278 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
59302309 AAACGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
59302340 AAACGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
59302357 AACCGTTAAA
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:59304603 original size:93 final size:93
Alignment explanation
Indices: 59304496--59304666 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59304486 GCCCCTAAGT
* *
59304496 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59304561 TGAGTTCGGATGCCTAGTTACATTTCAA
66 CGAGTTCGGATGCCTAGTTACATTTCAA
*
59304589 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59304654 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59304667 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAA
Found at i:59304663 original size:46 final size:46
Alignment explanation
Indices: 59304491--59304663 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
59304481 AACCCGCCCC
* * *
59304491 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
59304537 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
59304585 TCAA--GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 T-AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59304630 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59304664 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 9, Indels: 22
0.78 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 60 0.56
47 28 0.26
48 1 0.01
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:59307455 original size:46 final size:46
Alignment explanation
Indices: 59307397--59307522 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
59307387 TGGTTGAGCA
*
59307397 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAATG
*
59307443 TCCGAACACGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAATG
* * *
59307489 CCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59307523 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAATG
Found at i:59309779 original size:27 final size:27
Alignment explanation
Indices: 59309747--59309940 Score: 203
Period size: 27 Copynumber: 7.2 Consensus size: 27
59309737 TGAAATGCCT
*
59309747 TCGATTTGTAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * *
59309774 TTGATTTATAGAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
59309801 GCAATTTACA-AATTACCGTTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
59309827 TCGATTTATAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* *
59309854 TCGATTTACAGAATTACTATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * *
59309881 TTGATTTAAAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
59309908 TC-AGTTTACAAAATTAGCGTTTTACCC
1 TCGA-TTTATAGAATTACCATTTTACCC
*
59309935 TTGATT
1 TCGATT
59309941 GTGAAATTAC
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 23 0.16
27 116 0.83
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TCGATTTATAGAATTACCATTTTACCC
Found at i:59309823 original size:53 final size:53
Alignment explanation
Indices: 59309758--59309940 Score: 240
Period size: 54 Copynumber: 3.4 Consensus size: 53
59309748 CGATTTGTAG
* * *
59309758 AATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCGCAATTTACA
1 AATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTACA
* * *
59309811 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACA
1 AATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTACA
* * * *
59309864 GAATTACTATTTTACCCTTGATTTAAAAAATTACCATTTTACCCTCAGTTTACAA
1 -AATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTAC-A
* *
59309919 AATTAGCGTTTTACCCTTGATT
1 AATTACCATTTTACCCTTGATT
59309941 GTGAAATTAC
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
53 47 0.42
54 64 0.57
55 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (53 bp):
AATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATTTACA
Found at i:59309888 original size:80 final size:81
Alignment explanation
Indices: 59309747--59309940 Score: 230
Period size: 80 Copynumber: 2.4 Consensus size: 81
59309737 TGAAATGCCT
* * * *
59309747 TCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCGCAATTT-ACA
1 TCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCGCAATTTAAAA
*
59309811 AATTACCGTTTTACCC
66 AATTACCATTTTACCC
* * * ***
59309827 TCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATTTAAAA
1 TCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCGCAATTTAAAA
59309892 AATTACCATTTTACCC
66 AATTACCATTTTACCC
* * * *
59309908 TC-AGTTTACAAAATTAGCGTTTTACCCTTGATT
1 TCGA-TTTATAGAATTACCATTTTACCCTTGATT
59309941 GTGAAATTAC
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 53 0.55
81 43 0.45
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTTCACCCGCAATTTAAAA
AATTACCATTTTACCC
Found at i:59310002 original size:27 final size:27
Alignment explanation
Indices: 59309972--59310094 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
59309962 TATAGGATAG
59309972 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
59309999 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*** *
59310026 AATTACTGGAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
59310053 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
59310080 AATTACAAAAATACC
1 AATTACCAAAATACC
59310095 ATTGACTTTC
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
26 3 0.04
27 69 0.91
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:59310030 original size:54 final size:55
Alignment explanation
Indices: 59309972--59310094 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 55
59309962 TATAGGATAG
* * * ***
59309972 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACAAAAATACCCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
*** *
59310026 AATTACTGGAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACAAAAATACCCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
59310080 AATTACAAAAATACC
1 AATTACAAAAATACC
59310095 ATTGACTTTC
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
53 4 0.07
54 50 0.91
55 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (55 bp):
AATTACAAAAATACCCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:59310057 original size:81 final size:81
Alignment explanation
Indices: 59309939--59310095 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
59309929 TTACCCTTGA
* * **
59309939 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCT-AGTTTGTAAAATT
1 TTGTGAAATTACTGAAATACCCCAATAGGATAAAATTACCAAAATACCCCTGA-TTTACAAAATT
*
59310003 ACCAAAATACCACTGGT
65 ACAAAAATACCACTGGT
* **
59310020 TTGTGAAATTACTGGAATACCCTCAATTTG-TAAAATTACCAAAATACCCCTGATTTACAAAATT
1 TTGTGAAATTACTGAAATACCC-CAATAGGATAAAATTACCAAAATACCCCTGATTTACAAAATT
59310084 ACAAAAATACCA
65 ACAAAAATACCA
59310096 TTGACTTTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 61 0.92
82 5 0.08
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCCAATAGGATAAAATTACCAAAATACCCCTGATTTACAAAATTA
CAAAAATACCACTGGT
Found at i:59310147 original size:27 final size:27
Alignment explanation
Indices: 59310051--59310158 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
59310041 CTCAATTTGT
* ** *
59310051 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCATTGGTTTAC
* *
59310078 AAAATTACAAAAATACCATTGACTTT-C
1 AAAATTACTAAAATACCATTG-GTTTAC
59310105 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCATTGGTTTAC
* *
59310134 AGAATTACTAAAATACCCTTGGTTT
1 AAAATTACTAAAATACCATTGGTTT
59310159 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 39 0.58
28 9 0.13
29 19 0.28
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCATTGGTTTAC
Found at i:59310168 original size:27 final size:27
Alignment explanation
Indices: 59310053--59310181 Score: 82
Period size: 27 Copynumber: 4.7 Consensus size: 27
59310043 CAATTTGTAA
* * *
59310053 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTGGTTTACAG
* * * *
59310080 AATTACAAAAATACCATTGACTTT-CTAAA
1 AATTACCAAAATACCCTTG-GTTTAC--AG
* *
59310109 AATTA-TAGAAATACCATTGGTTTACAG
1 AATTACCA-AAATACCCTTGGTTTACAG
* **
59310136 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTACAG
* *
59310163 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
59310182 TAGGATGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
27 55 0.66
28 9 0.11
29 19 0.23
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTACAG
Found at i:59311124 original size:25 final size:24
Alignment explanation
Indices: 59311086--59311155 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
59311076 AGGAAGTGCT
*
59311086 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
59311110 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
59311135 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
59311156 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:59311168 original size:24 final size:24
Alignment explanation
Indices: 59311085--59311168 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
59311075 GAGGAAGTGC
* *
59311085 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
59311110 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
59311134 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
59311158 TAAAAGAGGCT
1 TAAAAG-GGCT
59311169 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:59311362 original size:42 final size:42
Alignment explanation
Indices: 59311303--59311393 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
59311293 TAGTCTCCCC
*
59311303 AAATGGGCTTACATACATTCATTGACATTACATGTGATATTG
1 AAATGGGATTACATACATTCATTGACATTACATGTGATATTG
*
59311345 AAATGGGATTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGATTACATACATTCATTGACATTACATGTGATATTG
59311387 AAATGGG
1 AAATGGG
59311394 CCTAAGGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGATTACATACATTCATTGACATTACATGTGATATTG
Found at i:59311462 original size:31 final size:30
Alignment explanation
Indices: 59311418--59311496 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 30
59311408 CGTTTACAGT
*
59311418 AAAAGCTTCGGCCCAGTGATCTGATTTATG
1 AAAAGCTTCGGCCCAGTGATATGATTTATG
*
59311448 AAAAGGCTTTGGCCCAGTGATATGATTTATG
1 AAAA-GCTTCGGCCCAGTGATATGATTTATG
*
59311479 AAAACGCTTCAGCCCAGT
1 AAAA-GCTTCGGCCCAGT
59311497 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.09
31 39 0.91
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (30 bp):
AAAAGCTTCGGCCCAGTGATATGATTTATG
Found at i:59320903 original size:47 final size:47
Alignment explanation
Indices: 59320848--59321039 Score: 269
Period size: 47 Copynumber: 4.1 Consensus size: 47
59320838 TTAGGATTTT
* * *
59320848 AATGTGATGAATGTGAATATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
59320895 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
59320942 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAGGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
59320989 GATGTGATGAATGTGAACATGTATATATGTGGA-AAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGCC
59321036 AATG
1 AATG
59321040 CGAAATGTGT
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 130 0.98
48 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:59321149 original size:46 final size:46
Alignment explanation
Indices: 59321013--59321149 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
59321003 GAACATGTAT
*
59321013 ATATGTGG-AAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAA-GCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
59321059 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
59321105 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
59321150 TGTATATATA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 76 0.96
47 3 0.04
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Done.