Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 219 of 356
Found at i:71726807 original size:30 final size:30
Alignment explanation
Indices: 71726748--71726807 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
71726738 TTTTACAAGC
* **
71726748 CTAAGGGCAAAATAATAATTTTGTGAAAGT
1 CTAAGGGCAAAACAATAATTTTGCCAAAGT
* *
71726778 CTAAGGGCAAAACGATCATTTTGCCAAAGT
1 CTAAGGGCAAAACAATAATTTTGCCAAAGT
71726808 TGGAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (30 bp):
CTAAGGGCAAAACAATAATTTTGCCAAAGT
Found at i:71727193 original size:48 final size:48
Alignment explanation
Indices: 71727128--71727600 Score: 574
Period size: 48 Copynumber: 9.8 Consensus size: 48
71727118 AGGGTTATAT
*
71727128 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
* *
71727176 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
71727224 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
* *
71727272 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
* * * * *
71727320 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGACCTCGATATGT
1 GAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTGATATGA
* * * *
71727368 GAACCAGTGTAAGACCATGTTTGGAATATGGCAT-GGCATTTATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
* * * * * * * * *
71727415 GAGCTAGTGTAAGGCCATGTATGGGACATGACATCGACCTCGACATGT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
** * * * *
71727463 GAGCTAGTGTAAGATTATGTTCTGG-ACATAGCATCGGCCTTGACATGT
1 GAGCTAGTGTAAGACCATGTT-TGGAACATGGCATCGGCATTGATATGA
* * * *
71727511 GAGCTAGTGTAAGACCATGTTTGGAACATGGCTTTGCCACTGATATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG--ATATGA
* *
71727561 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
71727601 CTTACCTTTT
Statistics
Matches: 359, Mismatches: 59, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
47 41 0.11
48 274 0.76
49 6 0.02
50 38 0.11
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGA
Found at i:71736455 original size:40 final size:40
Alignment explanation
Indices: 71736372--71736557 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
71736362 TTGAATGATG
* * * *
71736372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
71736412 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71736452 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71736492 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71736533 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71736558 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71736564 original size:80 final size:79
Alignment explanation
Indices: 71736425--71736590 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
71736415 GGACTAAGAT
* **
71736425 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
71736489 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
71736505 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
71736569 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
71736584 CCGAAGG
1 CCGAAGG
71736591 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:71743702 original size:19 final size:19
Alignment explanation
Indices: 71743678--71743733 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
71743668 GTATTCGATT
71743678 ACATGTGAATTTATATTGA
1 ACATGTGAATTTATATTGA
* *
71743697 ACATGTGCATTTA-GTT--
1 ACATGTGAATTTATATTGA
*
71743713 ACATGTGAGTTTATATTGA
1 ACATGTGAATTTATATTGA
71743732 AC
1 AC
71743734 TTATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 11 0.38
17 2 0.07
18 2 0.07
19 14 0.48
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (19 bp):
ACATGTGAATTTATATTGA
Found at i:71744549 original size:40 final size:40
Alignment explanation
Indices: 71744494--71744659 Score: 259
Period size: 40 Copynumber: 4.2 Consensus size: 40
71744484 CGAACTAAAA
71744494 TCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAG
1 TCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAG
* *
71744534 TCCCGAAGGCATTTGTGCTAGCTACTATATCCGGGCTAA-
1 TCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAG
*
71744573 T-CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAA
1 TCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAG
*
71744612 TCCCGAAGGCATTTCTGCTAGTTGCTATATCC-GGCTAAAG
1 TCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCT-AAG
71744652 -CCCGAAGG
1 TCCCGAAGG
71744660 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
38 35 0.30
39 14 0.12
40 68 0.58
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAG
Found at i:71744625 original size:78 final size:77
Alignment explanation
Indices: 71744496--71744649 Score: 263
Period size: 78 Copynumber: 2.0 Consensus size: 77
71744486 AACTAAAATC
* *
71744496 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCTACTA
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCCCGAAGGCATTTCTGCTAGCTACTA
71744561 TATCCGGGCTAAT
66 TATCC-GGCTAAT
* *
71744574 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCCCGAAGGCATTTCTGCTAGTTGCTA
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCCCGAAGGCATTTCTGCTAGCTACTA
71744639 TATCCGGCTAA
66 TATCCGGCTAA
71744650 AGCCCGAAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 6 0.08
78 66 0.92
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCCCGAAGGCATTTCTGCTAGCTACTA
TATCCGGCTAAT
Found at i:71752281 original size:27 final size:27
Alignment explanation
Indices: 71752225--71752282 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
71752215 ACTCCCTAAT
* *
71752225 TGATAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATGCCCCAACG
*
71752252 TGATAAAATGACTTTTATGCCCCAACG
1 TGATAAAATGACTGTTATGCCCCAACG
71752279 TGAT
1 TGAT
71752283 GTATAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
TGATAAAATGACTGTTATGCCCCAACG
Found at i:71753441 original size:7 final size:7
Alignment explanation
Indices: 71753429--71753471 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
71753419 CCAAAGCGTG
71753429 ACCCTAA
1 ACCCTAA
71753436 ACCCTAA
1 ACCCTAA
*
71753443 ACCATAA
1 ACCCTAA
71753450 ACCCTAA
1 ACCCTAA
71753457 ACCCTAA
1 ACCCTAA
71753464 ACCCTAA
1 ACCCTAA
71753471 A
1 A
71753472 ACTCTAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:71759557 original size:18 final size:18
Alignment explanation
Indices: 71759534--71759580 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
71759524 TTCTTGTCGA
71759534 AAAATAATTAAGTATTAT
1 AAAATAATTAAGTATTAT
71759552 AAAATAATTAAGTATTAT
1 AAAATAATTAAGTATTAT
71759570 AAAATAATTAA
1 AAAATAATTAA
71759581 ATTGTGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (18 bp):
AAAATAATTAAGTATTAT
Found at i:71768434 original size:46 final size:46
Alignment explanation
Indices: 71768284--71768434 Score: 123
Period size: 46 Copynumber: 3.2 Consensus size: 46
71768274 AAGCGTCCGT
*
71768284 ATCCATAAGTGAACTCGGACTAAACTCAACGAGTTCGGATGC-CTAGTTAC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---AC
* * * *** *
71768334 AT-CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GC
1 ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
*
71768377 ATCTGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACC
1 ATC-CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-C
71768425 ATCCT-AGTGA
1 ATCCTAAGTGA
71768435 CATGTCACTT
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
43 3 0.04
45 2 0.03
46 35 0.45
47 28 0.36
48 7 0.09
49 1 0.01
50 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
Found at i:71788048 original size:28 final size:29
Alignment explanation
Indices: 71788002--71788059 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
71787992 GGAGTTGAAA
71788002 AAATGGAATCAAATAGGTTCATACATATC
1 AAATGGAATCAAATAGGTTCATACATATC
*
71788031 AAATGGAAT-AAATAGGTTTATACATATC
1 AAATGGAATCAAATAGGTTCATACATATC
71788059 A
1 A
71788060 TGGCATAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (29 bp):
AAATGGAATCAAATAGGTTCATACATATC
Found at i:71793921 original size:31 final size:31
Alignment explanation
Indices: 71793839--71793924 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 31
71793829 GGGTATCAAA
* * *
71793839 TATTCATATTTGCATTATCATACTCTGTAAT
1 TATTCATATTTGCATTTTCATACCCTATAAT
* * * * *
71793870 CATTTATATTCGCATATTCATGCCCTATAAT
1 TATTCATATTTGCATTTTCATACCCTATAAT
*
71793901 TATTCACATTTGCATTTTCATACC
1 TATTCATATTTGCATTTTCATACC
71793925 ATGAACATGT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (31 bp):
TATTCATATTTGCATTTTCATACCCTATAAT
Found at i:71794423 original size:31 final size:31
Alignment explanation
Indices: 71794388--71794492 Score: 117
Period size: 31 Copynumber: 3.4 Consensus size: 31
71794378 TACTTATATT
71794388 AATATTAAATTAATAAAATATCATCAAGATA
1 AATATTAAATTAATAAAATATCATCAAGATA
* ** * *
71794419 AATATTAAATCAAATTTAATATC-TC-ACATT
1 AATATTAAAT-TAATAAAATATCATCAAGATA
*
71794449 AGTATTAAATTAATAAAATA-CTATCAAGATA
1 AATATTAAATTAATAAAATATC-ATCAAGATA
71794480 AATATTAAATTAA
1 AATATTAAATTAA
71794493 ATTTAATATT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
28 1 0.02
29 7 0.12
30 14 0.24
31 27 0.47
32 9 0.16
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (31 bp):
AATATTAAATTAATAAAATATCATCAAGATA
Found at i:71794464 original size:61 final size:61
Alignment explanation
Indices: 71794385--71794501 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
71794375 AATTACTTAT
71794385 ATTAATATTAAATTAATAAAATA-TCATCAAGATAAATATTAAATCAAATTTAATATCTCAC
1 ATTAATATTAAATTAATAAAATACT-ATCAAGATAAATATTAAATCAAATTTAATATCTCAC
* *
71794446 ATTAGTATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATAT
1 ATTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATAT
71794502 TAAAATTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
61 52 0.98
62 1 0.02
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATATCTCAC
Found at i:71796196 original size:18 final size:18
Alignment explanation
Indices: 71796173--71796215 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
71796163 TTAATATTAA
71796173 GGTTCGCACAAAAACATG
1 GGTTCGCACAAAAACATG
* * *
71796191 GGTTCGTATAATAACATG
1 GGTTCGCACAAAAACATG
71796209 GGTTCGC
1 GGTTCGC
71796216 TTACAACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (18 bp):
GGTTCGCACAAAAACATG
Found at i:71805443 original size:30 final size:31
Alignment explanation
Indices: 71805393--71805451 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
71805383 ATCAAGTTCC
*
71805393 ATATACATGTATCATCCATTT-CATATATCT
1 ATATACATGTAACATCCATTTCCATATATCT
71805423 ATATATCATGTAACAT-CATTTCCATATAT
1 ATATA-CATGTAACATCCATTTCCATATAT
71805452 TTCATGTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (31 bp):
ATATACATGTAACATCCATTTCCATATATCT
Found at i:71805644 original size:25 final size:25
Alignment explanation
Indices: 71805605--71805687 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
71805595 TCATGTACAT
* * *
71805605 GTATGCTCAGACGAGTTGTGAATCG
1 GTATGCTCACACGAGATATGAATCG
* *
71805630 GTATGCTCACTCGAGATATGGATCG
1 GTATGCTCACACGAGATATGAATCG
* * * *
71805655 GTATGCTCTCACAAGCTATAAATCG
1 GTATGCTCACACGAGATATGAATCG
71805680 GTATGCTC
1 GTATGCTC
71805688 TTACAGGCTA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGATATGAATCG
Found at i:71805688 original size:25 final size:25
Alignment explanation
Indices: 71805651--71805698 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
71805641 CGAGATATGG
71805651 ATCGGTATGCTCTCACAAGCTATAA
1 ATCGGTATGCTCTCACAAGCTATAA
* *
71805676 ATCGGTATGCTCTTACAGGCTAT
1 ATCGGTATGCTCTCACAAGCTAT
71805699 GGAGTATCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
ATCGGTATGCTCTCACAAGCTATAA
Found at i:71805861 original size:2 final size:2
Alignment explanation
Indices: 71805854--71805879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71805844 AATTCATAAC
71805854 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
71805880 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71809426 original size:40 final size:40
Alignment explanation
Indices: 71809371--71809574 Score: 254
Period size: 40 Copynumber: 5.1 Consensus size: 40
71809361 CGGAATTTAA
* ** *
71809371 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71809411 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71809451 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71809490 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
71809530 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71809570 CCGGA
1 CCGGA
71809575 CATCATTCGA
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 96 0.68
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71809501 original size:79 final size:80
Alignment explanation
Indices: 71809357--71809574 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 80
71809347 GAATCACGTA
* * * ** * * *
71809357 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
71809421 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
71809436 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
71809499 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * *
71809515 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
71809575 CATCATTCGA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 72 0.61
80 44 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:71822936 original size:45 final size:45
Alignment explanation
Indices: 71822886--71822998 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
71822876 GTAGCTGTAG
*
71822886 CTGTAACAGTAACAGTAACAGTATTCAACACACAAAATG-CTGAAT
1 CTGTAACAGTAACGGTAACAGTATTCAACACACAAAATGTC-GAAT
** * *
71822931 CTGTAACAGTAGTGGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CTGTAACAGTAACGGTAACAGTATTCAACACACAAAATGTCGAAT
*
71822976 CGGTAACAGTAACGGTAACAGTA
1 CTGTAACAGTAACGGTAACAGTA
71822999 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (45 bp):
CTGTAACAGTAACGGTAACAGTATTCAACACACAAAATGTCGAAT
Found at i:71822993 original size:12 final size:12
Alignment explanation
Indices: 71822976--71823000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71822966 AGTGTCGAAT
71822976 CGGTAACAGTAA
1 CGGTAACAGTAA
71822988 CGGTAACAGTAA
1 CGGTAACAGTAA
71823000 C
1 C
71823001 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:71824112 original size:5 final size:5
Alignment explanation
Indices: 71824066--71824130 Score: 53
Period size: 5 Copynumber: 12.4 Consensus size: 5
71824056 TTCTTTTCTG
*
71824066 TTTAT TTTGT TTCTA- TTTAT TTTAT GCTTTAT TTCT-T TTTAT TTTAT
1 TTTAT TTTAT TT-TAT TTTAT TTTAT --TTTAT TT-TAT TTTAT TTTAT
*
71824113 TTTAT TTATAT TATAT TT
1 TTTAT TT-TAT TTTAT TT
71824131 AATTAATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
4 3 0.06
5 35 0.71
6 6 0.12
7 5 0.10
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:71824344 original size:33 final size:33
Alignment explanation
Indices: 71824275--71824337 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
71824265 ATTATTTAAT
*
71824275 TAATAAATATCTCTTAATTTTAATAATAATAAA
1 TAATAAATATCTCTTAATTTAAATAATAATAAA
*
71824308 TAATAAATATAT-TCTAATTTAAATAA-AATA
1 TAATAAATATCTCT-TAATTTAAATAATAATA
71824338 TTATAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAATAATAAA
Found at i:71824608 original size:3 final size:3
Alignment explanation
Indices: 71824593--71824667 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
71824583 TTAATTTATT
* ** *
71824593 TAA TAA TAG TAA TAA TAA TAA TAA T-A TAA -AA CCA TAA CAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
71824637 TAA TTA TAA TAA TCAA TTA T-A TAA T-A TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
71824668 TATATAATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
2 8 0.14
3 43 0.77
4 5 0.09
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:71824653 original size:20 final size:19
Alignment explanation
Indices: 71824626--71824667 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
71824616 ATATAAAACC
71824626 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
71824645 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
71824665 ATA
1 ATA
71824668 TATATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:71827020 original size:19 final size:18
Alignment explanation
Indices: 71826998--71827059 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
71826988 TGCTCGAAAC
71826998 GCATCCTAACGTACAAAGT
1 GCATCCT-ACGTACAAAGT
* *
71827017 GCATACTA-GCACATGAAGT
1 GCATCCTACGTACA--AAGT
*
71827036 GCATCTTGACGTACAAAGT
1 GCATCCT-ACGTACAAAGT
71827055 GCATC
1 GCATC
71827060 TTGGCGCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 24 0.71
20 1 0.03
21 4 0.12
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (18 bp):
GCATCCTACGTACAAAGT
Found at i:71828329 original size:17 final size:16
Alignment explanation
Indices: 71828300--71828357 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
71828290 ACATATTTCT
*
71828300 AACAAAAATTTTTTAA
1 AACAAAAACTTTTTAA
71828316 AACATAAAACTTTTT--
1 AACA-AAAACTTTTTAA
*
71828331 AACAAACA-TATTTTAA
1 AACAAAAACT-TTTTAA
71828347 AA-AAAAACTTT
1 AACAAAAACTTT
71828358 AAAACTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
13 1 0.03
14 7 0.21
15 10 0.29
16 7 0.21
17 9 0.26
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (16 bp):
AACAAAAACTTTTTAA
Found at i:71828336 original size:31 final size:29
Alignment explanation
Indices: 71828299--71828357 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
71828289 AACATATTTC
*
71828299 TAACAAAAATTTTTTAAAACATAAAACTTTT
1 TAACAAAAATATTTTAAAA-A-AAAACTTTT
*
71828330 TAACAAACATATTTTAAAAAAAAACTTT
1 TAACAAAAATATTTTAAAAAAAAACTTT
71828358 AAAACTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 1 0.04
31 17 0.65
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (29 bp):
TAACAAAAATATTTTAAAAAAAAACTTTT
Found at i:71828812 original size:19 final size:18
Alignment explanation
Indices: 71828788--71828826 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
71828778 TTTAGATTCT
71828788 AATTT-AATCATTAAAGTTA
1 AATTTAAAT-ATTAAA-TTA
71828807 AATTTAAATATTAAATTA
1 AATTTAAATATTAAATTA
71828825 AA
1 AA
71828827 AAAATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 11 0.58
20 3 0.16
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
AATTTAAATATTAAATTA
Found at i:71828837 original size:22 final size:22
Alignment explanation
Indices: 71828806--71828848 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
71828796 CATTAAAGTT
* *
71828806 AAATTTAAATATTAAATTAAAA
1 AAATTCAAATATCAAATTAAAA
71828828 AAATTCAAATATCAAATTAAA
1 AAATTCAAATATCAAATTAAA
71828849 TATTAGAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTCAAATATCAAATTAAAA
Found at i:71829220 original size:21 final size:21
Alignment explanation
Indices: 71829194--71829233 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
71829184 TATTTGGCTG
71829194 CTAAGAAAATAAGTAGAAGCT
1 CTAAGAAAATAAGTAGAAGCT
71829215 CTAAGAAAATAAGTAGAAG
1 CTAAGAAAATAAGTAGAAG
71829234 TGGAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.20, T:0.17
Consensus pattern (21 bp):
CTAAGAAAATAAGTAGAAGCT
Found at i:71829977 original size:115 final size:116
Alignment explanation
Indices: 71829757--71830018 Score: 361
Period size: 115 Copynumber: 2.2 Consensus size: 116
71829747 TCCTATAGAA
*
71829757 AGTCTTGGTGTATTGTGTTTCAGAAAATCAATTTTTTGGGAGTTCAGACACATTAAAGAATTCAA
1 AGTCTTGGTGTATTGTGTTTCAGAAAATCAATTTGTT--GAGTTCAGACACATTAAAGAATTCAA
* *
71829822 TGGAAGAAATATGGAAGTTTTGCCTACTGAGGTATTGTGGTTGTTAGGACTGG
64 TGGAAGAAATATGGAAGTTTTGCCTACTGAGATATTGTGGTGGTTAGGACTGG
* **
71829875 AGTCTTGGTGTATTGTGTTTCGGAAAATCAATTGTGTT-AGTTGGGACACATT-AAG-ATATCAA
1 AGTCTTGGTGTATTGTGTTTCAGAAAATCAATT-TGTTGAGTTCAGACACATTAAAGAAT-TCAA
* * *
71829937 TGGGAGAACTGTGGAAGTTTTGCCTACCT-AGATATTGTGGTGGTTAGGACTGG
64 TGGAAGAAATATGGAAGTTTTGCCTA-CTGAGATATTGTGGTGGTTAGGACTGG
*
71829990 AGTCTTGGTGTATTGTGTTTCTGAAAATC
1 AGTCTTGGTGTATTGTGTTTCAGAAAATC
71830019 TGAGAACTAT
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
114 2 0.02
115 80 0.61
116 14 0.11
118 32 0.24
119 3 0.02
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.36
Consensus pattern (116 bp):
AGTCTTGGTGTATTGTGTTTCAGAAAATCAATTTGTTGAGTTCAGACACATTAAAGAATTCAATG
GAAGAAATATGGAAGTTTTGCCTACTGAGATATTGTGGTGGTTAGGACTGG
Found at i:71830042 original size:80 final size:80
Alignment explanation
Indices: 71829940--71830098 Score: 300
Period size: 80 Copynumber: 2.0 Consensus size: 80
71829930 ATATCAATGG
*
71829940 GAGAACTGTGGAAGTTTTGCCTACCTAGATATTGTGGTGGTTAGGACTGGAGTCTTGGTGTATTG
1 GAGAACTATGGAAGTTTTGCCTACCTAGATATTGTGGTGGTTAGGACTGGAGTCTTGGTGTATTG
71830005 TGTTTCTGAAAATCT
66 TGTTTCTGAAAATCT
*
71830020 GAGAACTATGGAAGTTTTGCCTACCTAGGTATTGTGGTGGTTAGGACTGGAGTCTTGGTGTATTG
1 GAGAACTATGGAAGTTTTGCCTACCTAGATATTGTGGTGGTTAGGACTGGAGTCTTGGTGTATTG
71830085 TGTTTCTGAAAATC
66 TGTTTCTGAAAATC
71830099 AACTGTGTTG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.21, C:0.11, G:0.30, T:0.37
Consensus pattern (80 bp):
GAGAACTATGGAAGTTTTGCCTACCTAGATATTGTGGTGGTTAGGACTGGAGTCTTGGTGTATTG
TGTTTCTGAAAATCT
Found at i:71836294 original size:29 final size:29
Alignment explanation
Indices: 71836261--71836320 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
71836251 TTCTTTCAAG
* * *
71836261 TCTAAGATTCGGTGCTCCCTTTGACGAGT
1 TCTAAGATTAGGAGCTCCCTTCGACGAGT
* *
71836290 TCTAAGTTTAGGAGCTTCCTTCGACGAGT
1 TCTAAGATTAGGAGCTCCCTTCGACGAGT
71836319 TC
1 TC
71836321 CATATTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (29 bp):
TCTAAGATTAGGAGCTCCCTTCGACGAGT
Found at i:71839440 original size:24 final size:25
Alignment explanation
Indices: 71839413--71839470 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
71839403 GTCTTCGCAG
* *
71839413 CAGCCA-CAGCCACAGTCTCAGCCT
1 CAGCCAGCAGCCACAATCCCAGCCT
71839437 CAG-CAGCAGCCACAATCCCAGCCT
1 CAGCCAGCAGCCACAATCCCAGCCT
71839461 CAG-CAGCAGC
1 CAGCCAGCAGC
71839471 AGCCAGCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.28, C:0.45, G:0.19, T:0.09
Consensus pattern (25 bp):
CAGCCAGCAGCCACAATCCCAGCCT
Found at i:71839463 original size:30 final size:30
Alignment explanation
Indices: 71839409--71839480 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
71839399 CTCAGTCTTC
* **
71839409 GCAGCAGCCACAGCCACAGTCTCAGCCTCA
1 GCAGCAGCCACAGCCACAGCCTCAGCAGCA
*
71839439 GCAGCAGCCACAATCC-CAGCCTCAGCAGCA
1 GCAGCAGCCAC-AGCCACAGCCTCAGCAGCA
71839469 GCAGCCAGCCAC
1 GCAG-CAGCCAC
71839481 TGGAGGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.28, C:0.44, G:0.21, T:0.07
Consensus pattern (30 bp):
GCAGCAGCCACAGCCACAGCCTCAGCAGCA
Found at i:71844941 original size:21 final size:21
Alignment explanation
Indices: 71844877--71844997 Score: 100
Period size: 21 Copynumber: 5.8 Consensus size: 21
71844867 GTTTAACTCA
* * *
71844877 TATGAGTTTCCGTTCAGCTCT
1 TATGGGTTTCCGTTCAACACT
* * * *
71844898 TTTGAGG-TTCTGTTTAACCCT
1 TATG-GGTTTCCGTTCAACACT
71844919 TATGGGTTTCCGTTCAACACT
1 TATGGGTTTCCGTTCAACACT
* *
71844940 TATGAGTTTCCGTTCAACCCT
1 TATGGGTTTCCGTTCAACACT
* * *
71844961 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCCGTTCAACACT
* *
71844982 TATGTGCTTCCGTTCA
1 TATGGGTTTCCGTTCA
71844998 GCCTTCGAGC
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.03
21 74 0.96
22 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (21 bp):
TATGGGTTTCCGTTCAACACT
Found at i:71844951 original size:63 final size:63
Alignment explanation
Indices: 71844877--71844997 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
71844867 GTTTAACTCA
* * * * *
71844877 TATGAGTTTCCGTTCAGCTCTTTTGAGG-TTCTGTTTAACCCTTATGGGTTTCCGTTCAACACT
1 TATGAGTTTCCGTTCAACCCTTATG-GGTTTCTGTTTAACACTTATGGGCTTCCGTTCAACACT
* *
71844940 TATGAGTTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCACTTATGTGCTTCCGTTCA
1 TATGAGTTTCCGTTCAACCCTTATGGGTTTCTGTTTAACACTTATGGGCTTCCGTTCA
71844998 GCCTTCGAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 2 0.04
63 48 0.96
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (63 bp):
TATGAGTTTCCGTTCAACCCTTATGGGTTTCTGTTTAACACTTATGGGCTTCCGTTCAACACT
Found at i:71844959 original size:42 final size:42
Alignment explanation
Indices: 71844877--71844997 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
71844867 GTTTAACTCA
* * * * * *
71844877 TATGAGTTTCCGTTCAGCTCTTTTGAGGTTCTGTTTAACCCT
1 TATGGGTTTCCGTTCAGCACTTATGAGCTTCCGTTCAACCCT
* *
71844919 TATGGGTTTCCGTTCAACACTTATGAGTTTCCGTTCAACCCT
1 TATGGGTTTCCGTTCAGCACTTATGAGCTTCCGTTCAACCCT
* * *
71844961 TATGGGTTTCTGTTTAGCACTTATGTGCTTCCGTTCA
1 TATGGGTTTCCGTTCAGCACTTATGAGCTTCCGTTCA
71844998 GCCTTCGAGC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (42 bp):
TATGGGTTTCCGTTCAGCACTTATGAGCTTCCGTTCAACCCT
Found at i:71849109 original size:30 final size:32
Alignment explanation
Indices: 71849075--71849146 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
71849065 AAGTTGCAAT
71849075 TTAGTCACTCAAC-TT-TCAAAAAATAACAAA
1 TTAGTCACTCAACGTTATCAAAAAATAACAAA
* *
71849105 TTAGTCACT-AACGTTATCGAAAAATTACAAA
1 TTAGTCACTCAACGTTATCAAAAAATAACAAA
*
71849136 TCAGTCACTCA
1 TTAGTCACTCA
71849147 TTAACATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 11 0.31
31 21 0.58
32 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (32 bp):
TTAGTCACTCAACGTTATCAAAAAATAACAAA
Found at i:71850201 original size:32 final size:32
Alignment explanation
Indices: 71850129--71850203 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 32
71850119 GAATTGAAAG
* * *
71850129 TTGAGTGA-TTGTTTTGTCATTGAGATCAAAT
1 TTGAGTGATTTTTTTTGTCATTAAGATCAAAA
71850160 TTGAG-GATTTTTTTTGTCATTAAGATCAAAA
1 TTGAGTGATTTTTTTTGTCATTAAGATCAAAA
71850191 TTGAGTGATTTTT
1 TTGAGTGATTTTT
71850204 GATGTAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 30 0.77
32 7 0.18
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (32 bp):
TTGAGTGATTTTTTTTGTCATTAAGATCAAAA
Found at i:71865375 original size:93 final size:93
Alignment explanation
Indices: 71865262--71865433 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
71865252 CGCCCATAAG
* *
71865262 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71865327 ACGAGTTCGGATGCCTAGTTACGTCTCA
66 ACGAGTTCGGATGCCTAGTTACGTCTCA
* *
71865355 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAATTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71865420 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71865434 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACGTCTCA
Found at i:71865430 original size:46 final size:46
Alignment explanation
Indices: 71865255--71865430 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
71865245 TGTAACCCGC
* * *
71865255 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
71865301 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACG--T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TT-CGCAT
*
71865351 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
71865394 CCATAAGTGAATTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
71865431 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 1 0.01
51 2 0.02
52 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:71871332 original size:19 final size:20
Alignment explanation
Indices: 71871308--71871355 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
71871298 GATCAGTTGG
71871308 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
*
71871327 ACCTTTTTTGGATTAATTAGCAT
1 ACC---TTTGGATTAATTAACAT
71871350 ACCTTT
1 ACCTTT
71871356 TTTTGACTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 15 0.62
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:71871340 original size:23 final size:23
Alignment explanation
Indices: 71871314--71871358 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
71871304 TTGGACCTTT
71871314 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
*
71871337 GATTAATTAGCATACCTTTTTT
1 GATTAATTAACATACCTTTTTT
71871359 TGACTGACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:71873765 original size:27 final size:27
Alignment explanation
Indices: 71873734--71873911 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
71873724 TAAATTGTAC
71873734 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
71873761 TGCACTAAGTGCGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71873787 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71873815 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71873843 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71873870 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71873897 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71873912 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71873848 original size:82 final size:81
Alignment explanation
Indices: 71873735--71873890 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
71873725 AAATTGTACA
* *
71873735 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGCGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGTA-GCACTAAGTG
71873799 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
71873816 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGTAGCACTAAGTG
*
71873881 TGCGAGTTGA
65 TGCGAATTGA
71873891 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71873902 original size:82 final size:81
Alignment explanation
Indices: 71873731--71873911 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
71873721 GATTAAATTG
* *
71873731 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGCGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGATGCACTAA
71873796 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
71873812 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGAT-GCACT
* **
71873876 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71873894 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71873912 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71891419 original size:40 final size:39
Alignment explanation
Indices: 71891375--71891599 Score: 254
Period size: 40 Copynumber: 5.7 Consensus size: 39
71891365 GCCACTAGCT
* *
71891375 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
71891415 CAAATGCCTTCGGGACTTAGCCTGGTATAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
71891454 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
71891494 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
71891534 CGAATGCCTTCGGGACTTAACCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
71891574 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
71891600 TATCATCCGA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 38 0.24
40 122 0.76
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:71891473 original size:79 final size:80
Alignment explanation
Indices: 71891375--71891559 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
71891365 GCCACTAGCT
* * * * * *
71891375 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
71891440 -TATAATAACTCACA
66 ATATAATAACTCACA
*
71891454 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* * *
71891519 ATATAGTAGCTCGCA
66 ATATAATAACTCACA
* *
71891534 CGAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71891560 ATTAGCCACT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.62
80 35 0.38
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCACA
Found at i:71891587 original size:80 final size:78
Alignment explanation
Indices: 71891375--71891599 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 78
71891365 GCCACTAGCT
* * * * * *
71891375 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAACCCGGATATA-TAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
71891440 TATAATAACTCACA
65 TATAATAACTCACA
* * *
71891454 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
71891519 ATATAGTAGCTCGCA
65 -TATAATAACTCACA
* *
71891534 CGAATGCCTTCGGGACTTAACCCGGA-AT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAACCCGGATATATAG---CTAGCACAAATGCCT-TCGGGACTTAGCC
71891596 CGGT
62 CGGT
71891600 TATCATCCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 3 0.02
79 62 0.49
80 61 0.48
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATATATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCACA
Found at i:71897599 original size:47 final size:47
Alignment explanation
Indices: 71897542--71897845 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
71897532 ATTGATGTAC
* * *
71897542 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
71897589 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
71897638 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
71897685 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
71897732 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
71897779 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
71897826 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
71897846 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:71902229 original size:19 final size:20
Alignment explanation
Indices: 71902197--71902235 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
71902187 AGTATTTAAG
*
71902197 CAAAACAAATAT-AAATCCC
1 CAAAACAAAAATAAAATCCC
*
71902216 CAAAATAAAAATAAAATCCC
1 CAAAACAAAAATAAAATCCC
71902236 GAGAGGCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAAACAAAAATAAAATCCC
Found at i:71903388 original size:30 final size:30
Alignment explanation
Indices: 71903352--71903412 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
71903342 TTCCCGAGCC
*
71903352 TAGGGGCAATAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
71903382 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
71903412 T
1 T
71903413 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:71906693 original size:27 final size:27
Alignment explanation
Indices: 71906448--71906721 Score: 262
Period size: 27 Copynumber: 10.1 Consensus size: 27
71906438 AAACATACAT
* * * * *
71906448 CACATAGGGGCAAAACAGTCATCTGAG
1 CACATAAGGGCAAAATAGTCATTTTAC
*
71906475 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
71906502 CACATAAAGGAAAAATAGTCACTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*** * * * *
71906529 CTTGTAAGGGCAAAACAATTATTCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
** *
71906556 CTTATAGGGGCAAAATAGTC-TTTCTAC
1 CACATAAGGGCAAAATAGTCATTT-TAC
* * * *
71906583 CATATAAGGGCAAAACAATCATTCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
71906610 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
**
71906637 TGCATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
71906664 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * * *
71906691 CACACAGGGGCAATACAGTCATTTTGC
1 CACATAAGGGCAAAATAGTCATTTTAC
71906718 CACA
1 CACA
71906722 AAGAGGAGTT
Statistics
Matches: 201, Mismatches: 44, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
26 2 0.01
27 197 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:71909340 original size:68 final size:63
Alignment explanation
Indices: 71909256--71909404 Score: 167
Period size: 63 Copynumber: 2.3 Consensus size: 63
71909246 GAGTGCACAT
* * *
71909256 CATGTGTACAAGAGAGCTACAAGACATTATGA-TGTAGCTAGGTCGCATGGGTGATACTATGTGT
1 CATGTGTACAAGAGAGCTAC--GACA-TA-AACTG--GCTAGGTCACATGGGTGATACTAAGTGT
71909320 TCAC
60 TCAC
* * *
71909324 TATGTAG-ACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATGGGTGGTACTAAGTGTTCAC
1 CATGT-GTACAAGAGAGCTACGACATAAACTGGCTAGGTCACATGGGTGATACTAAGTGTTCAC
71909387 CATGTGTACAAGAGAGCT
1 CATGTGTACAAGAGAGCT
71909405 GAACTATATG
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 44 0.62
64 1 0.01
65 4 0.06
66 3 0.04
68 17 0.24
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (63 bp):
CATGTGTACAAGAGAGCTACGACATAAACTGGCTAGGTCACATGGGTGATACTAAGTGTTCAC
Found at i:71916789 original size:24 final size:25
Alignment explanation
Indices: 71916743--71916799 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
71916733 GAGAAGAATC
*
71916743 CTCCCTTT-TATTTTTCTGATCCAT
1 CTCCCTTTGTATTTTTCAGATCCAT
* *
71916767 -TCCCTTTGTCTTTTTCAGCTCCAT
1 CTCCCTTTGTATTTTTCAGATCCAT
*
71916791 CTCCTTTTG
1 CTCCCTTTG
71916800 CACGTCAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.26
24 13 0.48
25 7 0.26
ACGTcount: A:0.09, C:0.32, G:0.07, T:0.53
Consensus pattern (25 bp):
CTCCCTTTGTATTTTTCAGATCCAT
Found at i:71919825 original size:27 final size:27
Alignment explanation
Indices: 71919802--71920042 Score: 286
Period size: 27 Copynumber: 8.9 Consensus size: 27
71919792 AAATACCGTT
* *
71919802 GATTTACAAAATTACTGTTTTACCATC
1 GATTTACAAAATTACTATTTTACCCTC
* *
71919829 GATTTATAAAATTACCATTTTACCCTC
1 GATTTACAAAATTACTATTTTACCCTC
*
71919856 GATTTACAAAATTACTGTTTTACCCTC
1 GATTTACAAAATTACTATTTTACCCTC
* * *
71919883 GATTTATAGAATTACTGTTTTACCCTC
1 GATTTACAAAATTACTATTTTACCCTC
* ** * *
71919910 AATTGGCAGAATTACTA-TTTACACTC
1 GATTTACAAAATTACTATTTTACCCTC
*
71919936 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAAAATTACTATTTTACCCTC
*
71919963 GATTTACAAAATTAATATTTTACCCTC
1 GATTTACAAAATTACTATTTTACCCTC
* *
71919990 GATTTACAGAATTACCATTTTTACCCTC
1 GATTTACAAAATTACTA-TTTTACCCTC
* * *
71920018 AATTTATAAAATTACCATTTTACCC
1 GATTTACAAAATTACTATTTTACCC
71920043 CTAGGGTGTT
Statistics
Matches: 185, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 22 0.12
27 139 0.75
28 24 0.13
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
GATTTACAAAATTACTATTTTACCCTC
Found at i:71922700 original size:27 final size:27
Alignment explanation
Indices: 71922511--71922693 Score: 249
Period size: 27 Copynumber: 6.8 Consensus size: 27
71922501 ATTATCGAAA
* *
71922511 TACCGTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
71922538 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
71922565 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
71922592 TACCCTCGATTTACAAAACTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
71922619 TACCCTCAATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
71922646 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
71922673 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTA
71922694 TTATTTTCAT
Statistics
Matches: 136, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:71927431 original size:28 final size:28
Alignment explanation
Indices: 71927391--71927460 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
71927381 TACTATTTAC
*
71927391 GGCACTTAGTGTGCAAGATATCGAGTGT
1 GGCACTTAGTGTGCAAGATATCGAGTAT
** *
71927419 GGCACTTAGTGTGTGATATATCGAGTAT
1 GGCACTTAGTGTGCAAGATATCGAGTAT
*
71927447 GGCACTTAATGTGC
1 GGCACTTAGTGTGC
71927461 GAGGCATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.31
Consensus pattern (28 bp):
GGCACTTAGTGTGCAAGATATCGAGTAT
Found at i:71930799 original size:40 final size:40
Alignment explanation
Indices: 71930762--71930987 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
71930752 GCTACTCGTT
* *
71930762 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
71930802 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
71930842 CAAATGGCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
71930882 GAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * * *
71930922 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
71930963 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
71930988 CATCATTCAA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 148 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:71938954 original size:43 final size:39
Alignment explanation
Indices: 71938808--71938992 Score: 173
Period size: 39 Copynumber: 4.6 Consensus size: 39
71938798 GCTACTCGTT
* *
71938808 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATT-TAGTAACTCGCA
71938847 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
71938886 CAAATGCCTTCGGACTTAACCCGGA-TTAGTATCAATCTCGCTA
1 CAAATGCCTTCGGACTTAACCCGGATTTAG--T-AA-CTCGC-A
** * * * *
71938929 CAAATGCCTTCGGATCTT-AGTCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAGTAACTCGCA
*
71938968 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAACCCGGA
71938993 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
38 22 0.18
39 61 0.49
40 7 0.06
41 3 0.02
42 6 0.05
43 20 0.16
44 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:71938954 original size:82 final size:81
Alignment explanation
Indices: 71938841--71938992 Score: 200
Period size: 82 Copynumber: 1.9 Consensus size: 81
71938831 GTTATAGTAA
* *
71938841 CTCGCACAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GGACTTAA
1 CTCGCACAAATGCCTTCGGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAA
71938905 CCCGGATTAGTATCAAT
65 CCCGGATTAGTATCAAT
** * *
71938922 CTCGCTACAAATGCCTTCGGATCTT-AGTCGGATATGGTCACTAGCACAAAGCCTTCGGGACTTA
1 CTCGC-ACAAATGCCTTCGGA-CTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTA
*
71938986 GCCCGGA
64 ACCCGGA
71938993 CATCATTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
81 11 0.18
82 47 0.77
83 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (81 bp):
CTCGCACAAATGCCTTCGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAAC
CCGGATTAGTATCAAT
Found at i:71940649 original size:1 final size:1
Alignment explanation
Indices: 71940643--71940702 Score: 120
Period size: 1 Copynumber: 60.0 Consensus size: 1
71940633 AAGACATGAT
71940643 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
71940703 GCGATAAAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:71941534 original size:52 final size:52
Alignment explanation
Indices: 71941467--71941582 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
71941457 GATATGACAT
*
71941467 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCACGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
71941519 TGTGCTAAGTGAAATAAGTCCACGGCATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCACGGCATCTAAGTGAAATAAGTCCATGGCAA
71941571 TGTGCTAAGTGA
1 TGTGCTAAGTGA
71941583 GAAATTTCCT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCACGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:71941535 original size:28 final size:27
Alignment explanation
Indices: 71941467--71941582 Score: 154
Period size: 24 Copynumber: 4.4 Consensus size: 27
71941457 GATATGACAT
*
71941467 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
71941494 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
71941519 TGTGCTAAGTGAAATAAGTCCACGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
71941546 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
71941570 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
71941583 GAAATTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
24 43 0.55
25 3 0.04
27 3 0.04
28 29 0.37
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:71941678 original size:51 final size:51
Alignment explanation
Indices: 71941618--71941852 Score: 278
Period size: 51 Copynumber: 4.6 Consensus size: 51
71941608 ATAAAATAGC
* **
71941618 TTTGGACACAAGTTTGGTACCGTGTGAAGGCCACTTTGTGAATATAATTGG
1 TTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAATTGG
* * * * * *
71941669 TTTGGACACAAGTTTGGTACTATGTAAAGGCCACTTTTTAAATATAATAGC
1 TTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAATTGG
*
71941720 TTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATA-AAATGG
1 TTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAATTGG
* * * * *
71941770 CTCTAGATACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATGA-AATAGC
1 -TTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAT-ATAATTGG
*
71941822 TTTGG-CTACAAGGGTGGTACTATGTGAAGGC
1 TTTGGAC-ACAAGTGTGGTACTATGTGAAGGC
71941853 AACCGTGTAT
Statistics
Matches: 157, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 3 0.02
51 150 0.96
52 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (51 bp):
TTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAATTGG
Found at i:71941782 original size:102 final size:102
Alignment explanation
Indices: 71941611--71941852 Score: 328
Period size: 102 Copynumber: 2.4 Consensus size: 102
71941601 TTTAGGGATA
* ** * * *
71941611 AAATAGCTTTGGACACAAGTTTGGTACCGTGTGAAGGCCACTTTGTGAATATAATTGGTTTGGAC
1 AAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAAATGGTCTAGAC
* *
71941676 ACAAGTTTGGTACTATGTAAAGGCCACTTTTTAAAT-
66 ACAAGTGTGGTACTATGTAAAGGCCACTTTGTAAATG
71941712 ATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATA-AAATGGCTCTAG
1 A-AATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAAATGG-TCTAG
* * *
71941776 ATACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATG
64 ACACAAGTGTGGTACTATGTAAAGGCCACTTTGTAAATG
*
71941815 AAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGC
1 AAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGC
71941853 AACCGTGTAT
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
101 7 0.06
102 117 0.94
103 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (102 bp):
AAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATATAAATGGTCTAGAC
ACAAGTGTGGTACTATGTAAAGGCCACTTTGTAAATG
Found at i:71944645 original size:22 final size:21
Alignment explanation
Indices: 71944617--71944681 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
71944607 GCAAATACGT
71944617 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
*
71944639 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACA-AACCATA-ATCAGG
**
71944661 TTGGTGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
71944682 AATAATTGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:71944890 original size:37 final size:40
Alignment explanation
Indices: 71944821--71944935 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 40
71944811 CTTAAAAGCC
* * *
71944821 ACCGGTGGATCCACAGTCATCAAGGAACCATGCGATCCTTA
1 ACCGGTGGATCCAC-GTCGTCAAGCAACCATGCGATCCTCA
* *
71944862 ATCGGTGGA-CCCCGTCGTCAA-C-ACCATGCGATCCTCA
1 ACCGGTGGATCCACGTCGTCAAGCAACCATGCGATCCTCA
71944899 ACCGGTGGATCCACGTCGTCAAGCAACCATGCGATCC
1 ACCGGTGGATCCACGTCGTCAAGCAACCATGCGATCC
71944936 CACTTTCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
37 22 0.34
38 11 0.17
39 8 0.12
40 15 0.23
41 8 0.12
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.18
Consensus pattern (40 bp):
ACCGGTGGATCCACGTCGTCAAGCAACCATGCGATCCTCA
Found at i:71965611 original size:37 final size:37
Alignment explanation
Indices: 71965551--71965628 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
71965541 TATTACGAAG
* * * *
71965551 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGAAAAAATCCCCACACGAAGTCATCGGA
* *
71965588 TCTTACCCGGAAAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGAAAAAATCCCCACACGAAGTCATCGGA
71965625 TCTT
1 TCTT
71965629 TAGAGCTCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGAAAAAATCCCCACACGAAGTCATCGGA
Found at i:71965815 original size:47 final size:47
Alignment explanation
Indices: 71965746--71966017 Score: 447
Period size: 47 Copynumber: 5.7 Consensus size: 47
71965736 CCCTTCGGGA
* * * *
71965746 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71965793 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71965840 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71965889 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71965936 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71965983 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
71966018 AGAATCCTAA
Statistics
Matches: 215, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 167 0.78
49 47 0.22
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71965908 original size:96 final size:96
Alignment explanation
Indices: 71965746--71966017 Score: 446
Period size: 96 Copynumber: 2.9 Consensus size: 96
71965736 CCCTTCGGGA
* * *
71965746 CTTATCACAT-T-TATACACTTTCACATCCATCACGTCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71965809 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
71965840 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71965905 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
71965936 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
71965999 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
71966018 AGAATCCTAA
Statistics
Matches: 169, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
93 1 0.01
94 79 0.47
95 1 0.01
96 88 0.52
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71966057 original size:143 final size:142
Alignment explanation
Indices: 71965757--71966019 Score: 377
Period size: 143 Copynumber: 1.9 Consensus size: 142
71965747 TTATCACATT
* *
71965757 TATACACTTTCACATCCATCACGTCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* * * *
71965822 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATCCATCACATAGGCCATAAA
*** *
71965887 GCCTTATCACATA
130 GCAAAATCACAGA
*
71965900 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* *
71965965 TCACATCGGCCATTAGGCCTTATCTC-ATATATGCA-TGTTCACATCCATCACATAG
66 TCACATCGGCCATTAGGCCTTATCACAATATATACACT-TTCACATCCATCACATAG
71966020 AATCCTAAAT
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
140 1 0.01
141 24 0.21
143 87 0.78
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (142 bp):
TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATCCATCACATAGGCCATAAAG
CAAAATCACAGA
Found at i:71971187 original size:40 final size:40
Alignment explanation
Indices: 71970948--71971173 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
71970938 TTGAATGATG
* * * *
71970948 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
71970988 TTCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71971028 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71971068 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71971108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71971149 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71971174 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.94
41 9 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71975190 original size:84 final size:84
Alignment explanation
Indices: 71975049--71975215 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 84
71975039 TTAAATATCC
* *
71975049 TAATCTATTCCCAAGGTTCAAACGGGATTTTCCTCAATCACACATCTTTTCCGTCTTCTACGGAA
1 TAATCTATTCCCAAGGTTCAAACGGGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACGAAA
*
71975114 TGTCGGAACTGATACTTGT
66 TGTCGGAACCGATACTTGT
71975133 TAATCTATTCCCAAGGTTCAAACGGGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACGAAA
1 TAATCTATTCCCAAGGTTCAAACGGGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACGAAA
71975198 TGTCGGAACCGATACTTG
66 TGTCGGAACCGATACTTG
71975216 GTAGCATTTC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (84 bp):
TAATCTATTCCCAAGGTTCAAACGGGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACGAAA
TGTCGGAACCGATACTTGT
Found at i:71978442 original size:3 final size:3
Alignment explanation
Indices: 71978434--71978474 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
71978424 AAAAGAAACA
71978434 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
71978475 ATGAATAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:71980798 original size:3 final size:3
Alignment explanation
Indices: 71980784--71980851 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
71980774 AGGTCAAACC
*
71980784 TCA TCA TAA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
* * *
71980832 TCC TCA TCC TCA TCT TCA TC
1 TCA TCA TCA TCA TCA TCA TC
71980852 TTCAATATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:71983714 original size:14 final size:14
Alignment explanation
Indices: 71983687--71983727 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
71983677 TATATTTTTT
71983687 AAAAAATT-ATATA
1 AAAAAATTAATATA
71983700 AAAATAA-TAATATA
1 AAAA-AATTAATATA
71983714 AAAAAATTAATATA
1 AAAAAATTAATATA
71983728 GCAAGTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTAATATA
Found at i:71984200 original size:18 final size:18
Alignment explanation
Indices: 71984164--71984197 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71984154 TGAGTTTTCA
*
71984164 AATTCGAATAACTCGAAT
1 AATTCGAATAACACGAAT
71984182 AATTCGAATAA-ACGAA
1 AATTCGAATAACACGAA
71984198 ATATGAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTCGAATAACACGAAT
Found at i:71984554 original size:18 final size:17
Alignment explanation
Indices: 71984531--71984591 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
71984521 TACTACCCTA
71984531 TTTACTTTCCCTCAAACT
1 TTTACTTTCCC-CAAACT
*
71984549 TTTAC-TTCCCAAAACTT
1 TTTACTTTCCCCAAAC-T
*
71984566 TTTATTTTCCCCCTAAACT
1 TTTACTTT-CCCC-AAACT
71984585 TTTACTT
1 TTTACTT
71984592 CTCACCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.11
17 10 0.29
18 7 0.20
19 10 0.29
20 4 0.11
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTACTTTCCCCAAACT
Found at i:71984818 original size:18 final size:19
Alignment explanation
Indices: 71984773--71984819 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
71984763 GGTATCAATT
**
71984773 TCACATTTTATCTTTAAAA
1 TCACATTTTATCTAAAAAA
* *
71984792 TAACTTTTTAT-TAAAAAA
1 TCACATTTTATCTAAAAAA
71984810 TCACATTTTA
1 TCACATTTTA
71984820 CATTTAATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (19 bp):
TCACATTTTATCTAAAAAA
Found at i:71995799 original size:27 final size:27
Alignment explanation
Indices: 71995742--71995801 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
71995732 ATACATCTCA
*
71995742 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGCATATCAGTCATTTTACAATG
*
71995769 TAGGGGCATTTCAGTCATTTTATCAAT-
1 TAGGGGCATATCAGTCATTTTA-CAATG
71995796 TAGGGG
1 TAGGGG
71995802 GTCTAGGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATCAGTCATTTTACAATG
Found at i:71997737 original size:40 final size:40
Alignment explanation
Indices: 71997692--71997843 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
71997682 ATAACCACAA
* * *
71997692 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
71997732 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
71997772 GCACAAATGCCTTCGGATCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
71997812 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
71997844 CATTCAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:71997762 original size:80 final size:80
Alignment explanation
Indices: 71997663--71997843 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
71997653 ACCCAAGTTT
* * * * * * *
71997663 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGATCTTAACCCGGATAAAAG
*
71997726 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * ** * *
71997742 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGATCTTAACCCGGATAAAAG
*
71997807 CACTAGCATAAATGC
66 CACTAGCACAAATGC
71997822 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71997844 CATTCAAATG
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
79 10 0.12
80 71 0.85
81 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAAATGCCTTCGGATCTTAACCCGGATAAAAG
CACTAGCACAAATGC
Found at i:72004280 original size:29 final size:29
Alignment explanation
Indices: 72004247--72004306 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
72004237 ATAACCAAAC
*
72004247 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
72004276 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
72004305 CT
1 CT
72004307 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:72004299 original size:15 final size:15
Alignment explanation
Indices: 72004253--72004300 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
72004243 AAACCTACAA
*
72004253 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
72004268 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
72004282 AAACTTCATATCCAT
1 AAACTTCATATCCAT
72004297 AAAC
1 AAAC
72004301 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:72004602 original size:7 final size:7
Alignment explanation
Indices: 72004590--72004616 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
72004580 GAAACCGATT
72004590 GGAAGAG
1 GGAAGAG
72004597 GGAAGAG
1 GGAAGAG
72004604 GGAAGAG
1 GGAAGAG
72004611 GGAAGA
1 GGAAGA
72004617 AGAAGAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (7 bp):
GGAAGAG
Found at i:72008476 original size:40 final size:40
Alignment explanation
Indices: 72008391--72008578 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
72008381 GCTACTAGCT
*
72008391 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
72008430 CAAATGCCTTCGGGACCTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
72008470 CGAATGCCTTCAGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
72008510 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
72008550 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
72008579 CAATCCGAAT
Statistics
Matches: 137, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 26 0.19
40 111 0.81
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:72010364 original size:28 final size:29
Alignment explanation
Indices: 72010286--72010371 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
72010276 ACATGGTTTG
* **
72010286 GAAT-TGATTCGGGCCGGATGGGCCATAT
1 GAATATGATTTGGGCCTAATGGGCCATAT
72010314 GAATATGATTTGGGCCTAATGGGCCATAT
1 GAATATGATTTGGGCCTAATGGGCCATAT
*
72010343 GAATGA-GA-TTGGGCCTAGTGGGCCATAT
1 GAAT-ATGATTTGGGCCTAATGGGCCATAT
72010371 G
1 G
72010372 CATGTATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.46
29 27 0.52
30 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (29 bp):
GAATATGATTTGGGCCTAATGGGCCATAT
Found at i:72014208 original size:20 final size:20
Alignment explanation
Indices: 72014183--72014227 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
72014173 GTCAGAACAT
72014183 TCTTAAGCTTCTCAAAACTC
1 TCTTAAGCTTCTCAAAACTC
72014203 TCTTAAGCTTCTCAAAACTC
1 TCTTAAGCTTCTCAAAACTC
72014223 TCTTA
1 TCTTA
72014228 TTGTGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (20 bp):
TCTTAAGCTTCTCAAAACTC
Found at i:72035156 original size:44 final size:45
Alignment explanation
Indices: 72035101--72035186 Score: 122
Period size: 44 Copynumber: 1.9 Consensus size: 45
72035091 TGGATGTCAC
72035101 ATGCATCGCATCCATAATGAAC-TCGAACCAACTCAACGAGCTTGG
1 ATGCATCGCATCCATAATGAACTTCG-ACCAACTCAACGAGCTTGG
* * *
72035146 ATGC-TCGCATCTATAATGAACTTTGACCAACTCAGCGAGCT
1 ATGCATCGCATCCATAATGAACTTCGACCAACTCAACGAGCT
72035187 CAGATGCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 31 0.84
45 6 0.16
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (45 bp):
ATGCATCGCATCCATAATGAACTTCGACCAACTCAACGAGCTTGG
Found at i:72035193 original size:44 final size:45
Alignment explanation
Indices: 72035101--72035281 Score: 127
Period size: 45 Copynumber: 4.0 Consensus size: 45
72035091 TGGATGTCAC
* **
72035101 ATGCATCGCATCCATAATGAAC-TCGAACCAACTCAACGAGCTTGG
1 ATGCATCGCATCTATAATGAACTTCG-ACCAACTCAACGAGCTCAG
* *
72035146 ATGC-TCGCATCTATAATGAACTTTGACCAACTCAGCGAGCTCAG
1 ATGCATCGCATCTATAATGAACTTCGACCAACTCAACGAGCTCAG
* * * * * * * * *
72035190 ATGCTTCACATATATCACGAACTTGGACCAACTTAACAAGTTCAG
1 ATGCATCGCATCTATAATGAACTTCGACCAACTCAACGAGCTCAG
* * * ** *
72035235 ATTTC-TCACATATACCACGAAC-TCGGACCAACTCAACGAGCTCAG
1 A-TGCATCGCATCTATAATGAACTTC-GACCAACTCAACGAGCTCAG
72035280 AT
1 AT
72035282 TTCTAAATTC
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
44 38 0.34
45 72 0.64
46 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (45 bp):
ATGCATCGCATCTATAATGAACTTCGACCAACTCAACGAGCTCAG
Found at i:72035282 original size:45 final size:45
Alignment explanation
Indices: 72035170--72035285 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
72035160 AATGAACTTT
* * * *
72035170 GACCAACTCAGCGAGCTCAGA-TGCTTCACATATATCACGAACTTG
1 GACCAACTCAACGAGCTCAGATTTC-TCACATATACCACGAACTCG
* * *
72035215 GACCAACTTAACAAGTTCAGATTTCTCACATATACCACGAACTCG
1 GACCAACTCAACGAGCTCAGATTTCTCACATATACCACGAACTCG
72035260 GACCAACTCAACGAGCTCAGATTTCT
1 GACCAACTCAACGAGCTCAGATTTCT
72035286 AAATTCCTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 58 0.97
46 2 0.03
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (45 bp):
GACCAACTCAACGAGCTCAGATTTCTCACATATACCACGAACTCG
Found at i:72039704 original size:37 final size:37
Alignment explanation
Indices: 72039637--72039748 Score: 125
Period size: 37 Copynumber: 2.9 Consensus size: 37
72039627 ATTTGATGTG
* *
72039637 TATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCA-GCTTCGTGCTGGTAAAA
**
72039677 TATCCGGGTTAAATCCCGCAGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGCTTCGTGCTGGTAAAA
* * *
72039714 TATCCGGGATAAATCCCGCAAGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGC-AGCTTCGTGCTGGTA
72039749 TTATATTCGG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
37 33 0.52
38 18 0.28
39 5 0.08
40 8 0.12
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (37 bp):
TATCCGGGTTAAATCCCGCAGCTTCGTGCTGGTAAAA
Found at i:72039753 original size:38 final size:37
Alignment explanation
Indices: 72039665--72039759 Score: 127
Period size: 37 Copynumber: 2.5 Consensus size: 37
72039655 TGCAGGCTTC
** * * *
72039665 GTGCTGGTAAAATATCCGGGTTAAATCCCGCAGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCCCGCAGCCTA
72039702 GTGCTGGTATTATATCCGGGATAAATCCCGCAAGCCTA
1 GTGCTGGTATTATATCCGGGATAAATCCCGC-AGCCTA
*
72039740 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
72039760 CCTTCGTGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 28 0.55
38 23 0.45
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (37 bp):
GTGCTGGTATTATATCCGGGATAAATCCCGCAGCCTA
Found at i:72039802 original size:43 final size:43
Alignment explanation
Indices: 72039740--72039960 Score: 146
Period size: 43 Copynumber: 4.9 Consensus size: 43
72039730 CGCAAGCCTA
*
72039740 GTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTAGCAGGCTTC
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
72039781 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCGGT-G-ATGTGCATTC
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCC--TAGCA-G-GC-TTC
* * * ** * * ** *
72039827 GGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGT-GATGTGTATTCAGGCCTTC
1 GTG-C-TGGTG-AT-GT-GTATTCGGGCC-TTCG-TGCCTA-GCAGG-CTTC
* *
72039878 GTGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTC
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
* *
72039921 GTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGC
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
72039961 GTAATGCTGG
Statistics
Matches: 136, Mismatches: 25, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
41 8 0.06
42 2 0.01
43 62 0.46
44 6 0.04
45 8 0.06
46 13 0.10
47 3 0.02
48 5 0.04
49 4 0.03
50 4 0.03
51 15 0.11
52 5 0.04
53 1 0.01
ACGTcount: A:0.10, C:0.24, G:0.34, T:0.32
Consensus pattern (43 bp):
GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
Found at i:72039816 original size:27 final size:27
Alignment explanation
Indices: 72039777--72039839 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
72039767 GCCTAGCAGG
* *
72039777 CTTCGTGCTGGTGATGTGTATTCGGGC
1 CTTCGTGCCGGTGATGTGCATTCGGGC
72039804 CTTCGTGCCGGTGATGTGCATTCGGGC
1 CTTCGTGCCGGTGATGTGCATTCGGGC
72039831 CTTCGTGCC
1 CTTCGTGCC
72039840 TAGTAGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.06, C:0.25, G:0.35, T:0.33
Consensus pattern (27 bp):
CTTCGTGCCGGTGATGTGCATTCGGGC
Found at i:72039866 original size:70 final size:70
Alignment explanation
Indices: 72039753--72039952 Score: 346
Period size: 70 Copynumber: 2.9 Consensus size: 70
72039743 CTGGTATTAT
*
72039753 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCGGTGA
1 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCGGTGA
72039818 TGTGC
66 TGTGC
* *
72039823 ATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCGGTGA
1 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCGGTGA
*
72039888 TGTGT
66 TGTGC
* *
72039893 ATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTTGTGCC
1 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCC
72039953 TAGCAGGCGT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 122 1.00
ACGTcount: A:0.10, C:0.24, G:0.34, T:0.32
Consensus pattern (70 bp):
ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCGGTGA
TGTGC
Found at i:72039881 original size:27 final size:27
Alignment explanation
Indices: 72039847--72039909 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
72039837 GCCTAGTAGG
72039847 CTTCGTGCCGGTGATGTGTATTCAGGC
1 CTTCGTGCCGGTGATGTGTATTCAGGC
*
72039874 CTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCGGTGATGTGTATTCAGGC
*
72039901 CTTCATGCC
1 CTTCGTGCC
72039910 TAGCAGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.25, G:0.32, T:0.33
Consensus pattern (27 bp):
CTTCGTGCCGGTGATGTGTATTCAGGC
Found at i:72039973 original size:43 final size:43
Alignment explanation
Indices: 72039879--72039973 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
72039869 CAGGCCTTCG
* **
72039879 TGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCG
1 TGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCGTAA
**
72039922 TGCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCGTAA
1 TGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCGTAA
*
72039965 TGCTGGTGA
1 TGCCGGTGA
72039974 AATGATATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.13, C:0.22, G:0.35, T:0.31
Consensus pattern (43 bp):
TGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCGTAA
Found at i:72046844 original size:15 final size:15
Alignment explanation
Indices: 72046794--72046866 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
72046784 TGGTATTGTG
**
72046794 TCTTGGATTTCTGAA
1 TCTTGGATTTCTCTA
*
72046809 TCTTAGGAGTTTCTTTA
1 TCTT-GGA-TTTCTCTA
*
72046826 TCTTGGATTTCTCTG
1 TCTTGGATTTCTCTA
* *
72046841 TCTTGGACTTCTTTA
1 TCTTGGATTTCTCTA
*
72046856 T-TTGGTTTTCT
1 TCTTGGATTTCT
72046867 TGTCATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.17
15 23 0.49
16 6 0.13
17 10 0.21
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (15 bp):
TCTTGGATTTCTCTA
Found at i:72049295 original size:39 final size:39
Alignment explanation
Indices: 72049241--72049407 Score: 244
Period size: 39 Copynumber: 4.3 Consensus size: 39
72049231 TTCAGTGATG
* *
72049241 ATTATATCCGGACTTAGGGTCCGCAGGCTATATGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
** *
72049280 ATTATATTTGGACTTAGGGTCCGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
72049319 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
* * *
72049358 ATTATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
* *
72049397 AATATGTCCGG
1 ATTATATCCGG
72049408 GCTAAAATCC
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
Found at i:72049434 original size:78 final size:78
Alignment explanation
Indices: 72049243--72049445 Score: 207
Period size: 78 Copynumber: 2.6 Consensus size: 78
72049233 CAGTGATGAT
*** *** *
72049243 TATATCCGGACTTAGGGTCCGCAGGCTAT-ATGCTGGAATTATATTTGGACTTAGGGTCCGCAGG
1 TATATCCGGACTTAAAATCCGCAGGCTATGA-GCTGGAATTATAACCGGACTTAAGGTCCGCAGG
* *
72049307 CTATGTGCTGGAAT
65 CTACGTGCTGGAAA
** * *
72049321 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCTGCAGGC
1 TATATCCGGACTTAAAATCCGCAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGC
72049386 TACGTGCTGGAAA
66 TACGTGCTGGAAA
* * *
72049399 TATGTCCGGGC-TAAAATCCCGCAGGCT-TCGAGCTGGTATTAT-ACCGG
1 TATATCCGGACTTAAAAT-CCGCAGGCTAT-GAGCTGGAATTATAACCGG
72049446 GTTTAAATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 10 0.09
78 97 0.91
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (78 bp):
TATATCCGGACTTAAAATCCGCAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGC
TACGTGCTGGAAA
Found at i:72051636 original size:31 final size:31
Alignment explanation
Indices: 72051593--72051800 Score: 310
Period size: 31 Copynumber: 6.7 Consensus size: 31
72051583 TCAGTCTCGA
72051593 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
72051623 CATATCACTGGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
72051654 CATATCACTAGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
72051685 CATATCACTAGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
** *
72051716 CATATTTCTGGGCCGAAGCCTTTTCATATAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
72051747 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
72051778 CATATCATTGGGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
72051801 ACTGTAAACG
Statistics
Matches: 163, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
30 5 0.03
31 158 0.97
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:72052033 original size:24 final size:24
Alignment explanation
Indices: 72052006--72052112 Score: 144
Period size: 25 Copynumber: 4.4 Consensus size: 24
72051996 CTGGAGGCCT
*
72052006 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
72052030 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
72052054 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
* *
72052079 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
72052104 AGCCCTTTT
1 AGCCCTTTT
72052113 AGCACTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 7 0.09
24 24 0.31
25 47 0.60
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:72052075 original size:25 final size:25
Alignment explanation
Indices: 72052019--72052112 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
72052009 CTCTTTTAAT
*
72052019 AACTGGGGCAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
72052043 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
72052068 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
72052093 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
72052113 AGCACTTCCT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:72052938 original size:26 final size:27
Alignment explanation
Indices: 72052905--72052976 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
72052895 TATTACGGAA
*
72052905 CATA-AGGGCTTATT-C-GTCATTTTAC
1 CATACAGGGCTT-TTACGGTCACTTTAC
*
72052930 CATACAGGGGTTTTACGGTCACTTTAC
1 CATACAGGGCTTTTACGGTCACTTTAC
*
72052957 CCTACAGGGGC-TTTACGGTC
1 CATACA-GGGCTTTTACGGTC
72052977 TTTTTACCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 6 0.15
26 7 0.18
27 23 0.59
28 3 0.08
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
CATACAGGGCTTTTACGGTCACTTTAC
Found at i:72052950 original size:27 final size:27
Alignment explanation
Indices: 72052920--72052984 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
72052910 GGGCTTATTC
*
72052920 GTCATTTTACCATACAGGGGTTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
* *
72052947 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
72052974 GTCTTTTTACC
1 GTCATTTTACC
72052985 TAATAGGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:72053068 original size:27 final size:27
Alignment explanation
Indices: 72053038--72053135 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
72053028 GTAAATCTAC
72053038 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
72053065 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
72053091 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
72053121 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
72053136 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.53
28 7 0.11
29 20 0.32
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:72053142 original size:27 final size:27
Alignment explanation
Indices: 72053112--72053251 Score: 142
Period size: 27 Copynumber: 5.2 Consensus size: 27
72053102 GGTATTTCTA
**
72053112 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* * *
72053139 TAATTTTACAAAT-TGAGGGTATTTCGA
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * *
72053166 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
72053193 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
* *
72053220 TAATTTTACAAA-CCGGAGATATTTTGG
1 TAATTTTACAAATCAGG-GGTATTTTGG
72053247 TAATT
1 TAATT
72053252 CTATCCTAAG
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 89 0.95
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:72053143 original size:56 final size:54
Alignment explanation
Indices: 72053035--72053204 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 54
72053025 TTGGTAAATC
* * *
72053035 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCA-TAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * *
72053090 TAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** ***
72053145 TACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
72053199 TACAAA
1 TACAAA
72053205 CTAGGGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
54 46 0.47
55 14 0.14
56 36 0.37
57 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:72053187 original size:54 final size:53
Alignment explanation
Indices: 72053100--72053251 Score: 178
Period size: 54 Copynumber: 2.8 Consensus size: 53
72053090 TAGAAAGTCA
* ** * * *
72053100 AGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGATAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAACT
* *
72053153 GAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGATAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAACT
* * * *
72053207 AGGGGTATTTTGGTAATTTTACAAACCGGAGATATTTTGGTAATT
1 A-GGGTATTTCGATAATTTTACAAACCAGAGGTATTTTGGTAATT
72053252 CTATCCTAAG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 83 0.99
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTTACAAACCAGAGGTATTTTGGTAATTTTACAAACT
Found at i:72053385 original size:27 final size:27
Alignment explanation
Indices: 72053282--72053398 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
72053272 GTAATTTCAC
* *
72053282 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
72053309 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
72053336 AATTGAGGGTAAAACGCTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
72053363 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
72053390 AATCGAGGG
1 AATCGAGGG
72053399 CATTTCAGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:72053398 original size:54 final size:54
Alignment explanation
Indices: 72053282--72053398 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
72053272 GTAATTTCAC
* * * * * **
72053282 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
*
72053336 AATTGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
72053390 AATCGAGGG
1 AATCGAGGG
72053399 CATTTCAGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
Found at i:72058761 original size:20 final size:20
Alignment explanation
Indices: 72058736--72058785 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
72058726 CATAAAAAAT
*
72058736 TATCGATACCTT-TCACAAGG
1 TATCGATACCTTACCACAA-G
*
72058756 TATCGATAAACTTACCACAAG
1 TATCGAT-ACCTTACCACAAG
72058777 TATCGATAC
1 TATCGATAC
72058786 TAGGGATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (20 bp):
TATCGATACCTTACCACAAG
Found at i:72059949 original size:22 final size:22
Alignment explanation
Indices: 72059922--72059974 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
72059912 CCTAGTTCTC
*
72059922 TTTATCACAATTCACGAGCACA
1 TTTATCACAATTCACAAGCACA
72059944 TTTATCACAATTCACAAGCACA
1 TTTATCACAATTCACAAGCACA
72059966 TTTATCACA
1 TTTATCACA
72059975 TATTTAGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (22 bp):
TTTATCACAATTCACAAGCACA
Done.