Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 208 of 218
Found at i:61737253 original size:11 final size:12
Alignment explanation
Indices: 61737221--61737263 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
61737211 TTAAATATAG
61737221 ATTTGAGA-GAA
1 ATTTGAGAGGAA
61737232 ATTTG-GAAGGAA
1 ATTTGAG-AGGAA
61737244 A-TTGAGAGGAA
1 ATTTGAGAGGAA
61737255 ATTTGAGAG
1 ATTTGAGAG
61737264 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 15 0.54
12 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:61737752 original size:36 final size:36
Alignment explanation
Indices: 61737705--61737778 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
61737695 AGTGGTGTGC
61737705 TTTCGTTGATTCTAGCCACTCCTTTTTAGATAAAAT
1 TTTCGTTGATTCTAGCCACTCCTTTTTAGATAAAAT
*
61737741 TTTCGTTGATTCTAGTCACTCCTTTTTAGATAAAAT
1 TTTCGTTGATTCTAGCCACTCCTTTTTAGATAAAAT
61737777 TT
1 TT
61737779 CCAAAAAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (36 bp):
TTTCGTTGATTCTAGCCACTCCTTTTTAGATAAAAT
Found at i:61738226 original size:14 final size:15
Alignment explanation
Indices: 61738195--61738242 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
61738185 GTAGAGATTC
61738195 ATATGTAATATT-CT-
1 ATAT-TAATATTACTA
*
61738209 ATATTAATA-TAGTA
1 ATATTAATATTACTA
61738223 ATA-TAATATTACTA
1 ATATTAATATTACTA
61738237 ATATTA
1 ATATTA
61738243 TCGACTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 1 0.04
13 11 0.39
14 14 0.50
15 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (15 bp):
ATATTAATATTACTA
Found at i:61744084 original size:20 final size:20
Alignment explanation
Indices: 61744059--61744108 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61744049 TGGCTTAAAA
61744059 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61744079 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61744096 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61744109 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61748722 original size:20 final size:20
Alignment explanation
Indices: 61748697--61748746 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
61748687 TGGCTTAAAA
61748697 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
61748717 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
61748734 GTGGTAGTGGATT
1 TTGGTAGTGGATT
61748747 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:61750759 original size:614 final size:606
Alignment explanation
Indices: 61749483--61750703 Score: 2004
Period size: 614 Copynumber: 2.0 Consensus size: 606
61749473 GGATTGCTAT
* * *
61749483 TGCTTAAGGGACATAATACTTACAGAGGAAATTGAAGAAGAAAGGAGAGATGTGATTTGTTTCGC
1 TGCTTAAGGGACACAATACTTACAGAGG--ATTGAAGAAGAAAGGAAAGATGTGATTTGTTTCCC
*
61749548 TCGATTAAACTCCCTGCATATAGTGGGTCTTCCAAACCTCATCTTCTTCAACTCAGGAAACCACA
64 TCGATTAAACTCCCTGCAAATAGTGGGTCTTCCAAACCTCATCTTCTTCAACTCAGGAAACCACA
61749613 ATATTGAGTTCCCATTGTTGAAAGTGCTAAAGATTGAGCGTTGCCCCAAGTTAATAGAATTCATT
129 ATATTGAGTTCCCATTGTTGAAAGTGCTAAAGATTGAGCGTTGCCCCAAGTTAATAGAATTCATT
61749678 AGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATTTCAGTAG
194 AGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATTTCAGTAG
61749743 TCTTACACTCTTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTTCTGCCTTCATTATTTGG
259 TCTTACACTCTTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTTCTGCCTTCATTA-TT--
61749808 GCTAACCTTATTATGGGCATGGATTATATATATATATGAACAGGTTGCAGTTCCTAGCTTGGAAG
321 G-T-A-CTTATTATGGGCATGGATTATATATATATATGAACAGGTTGCAGTTCCTAGCTTGGAAG
* *
61749873 ACATGGAGATTAACTTGAGTAATGTGAAGATGATATTTTATAATGACCTAGCACCAGGTTCCTTT
383 ACATGAAGATTAACTTGAGTAATGTGAAGATGATATTTTATAATGACCTAGCACCAGGTTCCTTG
61749938 AAAAATCTACGAAAAATAAATGTTCGGCGATGTGAGAATTTGAAAAATCTATTTCCAGTATCAAT
448 AAAAATCTACGAAAAATAAATGTTCGGCGATGTGAGAATTTGAAAAATCTATTTCCAGTATCAAT
* *
61750003 AGCCAAAGATCTTCCACAACTTGAACATTTAAGCATCACTGATTGTTGAGTTGAGGAGATTGTAT
513 AGCCAAAGATCTTCCACAACTTGAACATTTAAGCATCACTAATTGTGGAGTTGAGGAGATTGTAT
**
61750068 CGAAAGGGGATGGAGTGGAGGATTGCAAG
578 CGAAAGGGGATGGAGTGGAGGACAGCAAG
*
61750097 TGCTTAAGGGACATAATACTTACAGAGGAAATTGAAGAAGAAAGGAAAGATGTGATTTGTTTCCC
1 TGCTTAAGGGACACAATACTTACAGAGG--ATTGAAGAAGAAAGGAAAGATGTGATTTGTTTCCC
61750162 TCGATTAAACTCCCTGCAAATAGTGGGTCTTCCAAACCTCATCTTCTTCAACTCAGGAAACCACA
64 TCGATTAAACTCCCTGCAAATAGTGGGTCTTCCAAACCTCATCTTCTTCAACTCAGGAAACCACA
* *
61750227 ATATTGAGTTCCCATTGTTGAAAGTGCTAAAGATTGGGCGTTGCCCCGAGTTAATAGAATTCATT
129 ATATTGAGTTCCCATTGTTGAAAGTGCTAAAGATTGAGCGTTGCCCCAAGTTAATAGAATTCATT
* *
61750292 AGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATTTCATTTG
194 AGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATTTCAGTAG
61750357 TCTTACACTCTTGCATAAATCTGTTGATTTGTCCTTG-TTTTTTTTTTCTGCCTTCATTA-T-T-
259 TCTTACACTCTTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTTCTGCCTTCATTATTGTA
*
61750418 CTTATTATGGGCATGGATTATATATGTATATATGAATAGGTTGCAGTTCCTAGCTTGGAAGACAT
324 CTTATTATGGGCATGGATTATATA--TATATATGAACAGGTTGCAGTTCCTAGCTTGGAAGACAT
* **
61750483 -AACTATCTTTGGCTTGAGTAATGTGAAGATGATATTTTATAATGACCTAGCACCAGGTTCCTTG
387 GAA-GA---TTAACTTGAGTAATGTGAAGATGATATTTTATAATGACCTAGCACCAGGTTCCTTG
* * * * *
61750547 AAAAATCTACTAAAAATAAGTGTTTGG-GAATGTGGGAGTTTGAAAAATCTATTTCCAGTATCAA
448 AAAAATCTACGAAAAATAAATGTTCGGCG-ATGTGAGAATTTGAAAAATCTATTTCCAGTATCAA
* *
61750611 TAGCCAAAGATCTTCCACAACTTGAAGATTTACGCATCACTAATTGTGGAGTTGAGGAGATTGTA
512 TAGCCAAAGATCTTCCACAACTTGAACATTTAAGCATCACTAATTGTGGAGTTGAGGAGATTGTA
61750676 TCGAAAGGGGATGGAGTGGAGGAGCAGC
577 TCGAAAGGGGATGGAGTGGAGGA-CAGC
61750704 CTGTGAGGTT
Statistics
Matches: 575, Mismatches: 24, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
604 24 0.04
605 1 0.00
606 39 0.07
607 1 0.00
608 1 0.00
609 194 0.34
610 2 0.00
611 1 0.00
613 22 0.04
614 290 0.50
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (606 bp):
TGCTTAAGGGACACAATACTTACAGAGGATTGAAGAAGAAAGGAAAGATGTGATTTGTTTCCCTC
GATTAAACTCCCTGCAAATAGTGGGTCTTCCAAACCTCATCTTCTTCAACTCAGGAAACCACAAT
ATTGAGTTCCCATTGTTGAAAGTGCTAAAGATTGAGCGTTGCCCCAAGTTAATAGAATTCATTAG
TCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATTTCAGTAGTC
TTACACTCTTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTTCTGCCTTCATTATTGTACT
TATTATGGGCATGGATTATATATATATATGAACAGGTTGCAGTTCCTAGCTTGGAAGACATGAAG
ATTAACTTGAGTAATGTGAAGATGATATTTTATAATGACCTAGCACCAGGTTCCTTGAAAAATCT
ACGAAAAATAAATGTTCGGCGATGTGAGAATTTGAAAAATCTATTTCCAGTATCAATAGCCAAAG
ATCTTCCACAACTTGAACATTTAAGCATCACTAATTGTGGAGTTGAGGAGATTGTATCGAAAGGG
GATGGAGTGGAGGACAGCAAG
Found at i:61758268 original size:4 final size:4
Alignment explanation
Indices: 61758259--61758284 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
61758249 CATGGGTTTT
61758259 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
61758285 GTTAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:61759911 original size:51 final size:51
Alignment explanation
Indices: 61759794--61759912 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 51
61759784 CCCTCAAAGT
* * * * *
61759794 TTACACATTCTATAAATTTGTTATTGATTTAACAAATTTAACTCACAACAT
1 TTACACATTCTATCAATTTGTCATTGATCTAACAAATTTAACCCACAACAA
* * *
61759845 TTACACATT-TCATCAATTTGATCA-TGATCTAACATATTTAACCCATAATAA
1 TTACACATTCT-ATCAATTTG-TCATTGATCTAACAAATTTAACCCACAACAA
61759896 TTACACATTCTATCAAT
1 TTACACATTCTATCAAT
61759913 ATTTACGCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
50 1 0.02
51 53 0.93
52 3 0.05
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (51 bp):
TTACACATTCTATCAATTTGTCATTGATCTAACAAATTTAACCCACAACAA
Found at i:61760780 original size:39 final size:39
Alignment explanation
Indices: 61760726--61760867 Score: 160
Period size: 39 Copynumber: 3.8 Consensus size: 39
61760716 AATATATTTA
61760726 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAA-TTTTTTAATTTTAAAATATTTTTAAAATACT
61760766 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATAC-
1 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACT
*
61760804 --------TTTTTT-ATTTTAAAATATTTTTTAAATACT
1 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACT
*
61760834 TTTTTTAGTTTTTTTAATTTTTAAAATAATTTTT
1 TTTTTTA-ATTTTTTAA-TTTTAAAAT-ATTTTT
61760868 TGGTATTTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 24
0.78 0.01 0.21
Matches are distributed among these distances:
29 22 0.25
30 6 0.07
39 36 0.41
40 9 0.10
41 9 0.10
42 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (39 bp):
TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:61760826 original size:17 final size:18
Alignment explanation
Indices: 61760793--61760827 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61760783 TTTAAAATAT
61760793 TTTTAAAATACTTTTTTA
1 TTTTAAAATACTTTTTTA
61760811 TTTTAAAATA-TTTTTTA
1 TTTTAAAATACTTTTTTA
61760828 AATACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAAAATACTTTTTTA
Found at i:61760838 original size:29 final size:29
Alignment explanation
Indices: 61760754--61760838 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
61760744 TTTAAAATAT
* *
61760754 TTTTAAAATACTTTTTTTAAT--TTTTTAA
1 TTTTAAAATA-TTTTTTAAATACTTTTTTA
*
61760782 TTTTAAAATATTTTTAAAATACTTTTTTA
1 TTTTAAAATATTTTTTAAATACTTTTTTA
61760811 TTTTAAAATATTTTTTAAATACTTTTTT
1 TTTTAAAATATTTTTTAAATACTTTTTT
61760839 TAGTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 8 0.16
28 10 0.20
29 33 0.65
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTAAAATATTTTTTAAATACTTTTTTA
Found at i:61770347 original size:8 final size:8
Alignment explanation
Indices: 61770336--61770364 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
61770326 AAACAAAAAA
61770336 AAAATTGG
1 AAAATTGG
61770344 AAAATTGG
1 AAAATTGG
61770352 AAAATTGG
1 AAAATTGG
61770360 AAAAT
1 AAAAT
61770365 GACCTTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (8 bp):
AAAATTGG
Found at i:61790966 original size:25 final size:23
Alignment explanation
Indices: 61790938--61790995 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
61790928 TTTTAAAGTT
* *
61790938 AAATACTAATGGACAATAAATAATA
1 AAATACTAATAGAAAAT-AA-AATA
*
61790963 AAATAATAATAGAAAATAAAATA
1 AAATACTAATAGAAAATAAAATA
*
61790986 AAAAACTAAT
1 AAATACTAAT
61790996 CTTCATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 12 0.43
24 2 0.07
25 14 0.50
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (23 bp):
AAATACTAATAGAAAATAAAATA
Found at i:61791442 original size:19 final size:19
Alignment explanation
Indices: 61791413--61791451 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
61791403 CAATTAATTA
61791413 ATTTTTAAAATATTTTATAT
1 ATTTTTAAAATATTTT-TAT
61791433 ATTTTT-AAATATTTTTAT
1 ATTTTTAAAATATTTTTAT
61791451 A
1 A
61791452 AAATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTAAAATATTTTTAT
Found at i:61791458 original size:20 final size:20
Alignment explanation
Indices: 61791415--61791465 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
61791405 ATTAATTAAT
*
61791415 TTTTAAAATATTTTAT-ATA
1 TTTTAAAATATTTTATAAAA
*
61791434 TTTTTAAATATTTTTATAAAA
1 TTTTAAAATA-TTTTATAAAA
61791455 TTTTCAAAATA
1 TTTT-AAAATA
61791466 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 6 0.23
22 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATATTTTATAAAA
Found at i:61793513 original size:17 final size:17
Alignment explanation
Indices: 61793491--61793524 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61793481 ATCCACTAAT
*
61793491 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61793508 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61793525 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61798143 original size:17 final size:17
Alignment explanation
Indices: 61798121--61798154 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61798111 ATCCACTAAT
*
61798121 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
61798138 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
61798155 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:61811704 original size:21 final size:21
Alignment explanation
Indices: 61811678--61811718 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61811668 ATCTGCTCAA
* *
61811678 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61811699 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61811719 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61822068 original size:18 final size:18
Alignment explanation
Indices: 61822045--61822089 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
61822035 GAAGCAAGCT
61822045 ATGATTGAAGAAATCAGG
1 ATGATTGAAGAAATCAGG
61822063 ATGATTGAAGAAATCAGG
1 ATGATTGAAGAAATCAGG
61822081 ATGATTGAA
1 ATGATTGAA
61822090 AAGAATCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.24
Consensus pattern (18 bp):
ATGATTGAAGAAATCAGG
Found at i:61826328 original size:4 final size:4
Alignment explanation
Indices: 61826319--61826420 Score: 204
Period size: 4 Copynumber: 25.5 Consensus size: 4
61826309 CATGTGTTTT
61826319 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
61826367 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
61826415 TACA TA
1 TACA TA
61826421 GTTAATTGAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 98 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:61827877 original size:51 final size:50
Alignment explanation
Indices: 61827801--61827936 Score: 123
Period size: 51 Copynumber: 2.7 Consensus size: 50
61827791 GTATAATGAT
* * *
61827801 AAATTTAGCCCTCAAAGTTTACACATTCTATCAAATT-GTCATCGATTTAAA
1 AAATTTAACCCACAAA-TTTACACATTCTATCAAATTAATCAT-GATTTAAA
* * *
61827852 AAATTTAACCCACAACATTTACACATT-TCGTCAATTTAATCATGATTTAAC
1 AAATTTAACCCACAA-ATTTACACATTCT-ATCAAATTAATCATGATTTAAA
* ** *
61827903 ATATTTAACCCGTAATAATTACACATTCTATCAA
1 AAATTTAACCCACAA-ATTTACACATTCTATCAA
61827937 CATTTACGCA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
50 1 0.01
51 62 0.90
52 6 0.09
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (50 bp):
AAATTTAACCCACAAATTTACACATTCTATCAAATTAATCATGATTTAAA
Found at i:61828073 original size:36 final size:36
Alignment explanation
Indices: 61828026--61828103 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
61828016 ATTGGCGCTT
61828026 GATTAATTGTTCGTGGTTACTTTCAAAATTGATAAG
1 GATTAATTGTTCGTGGTTACTTTCAAAATTGATAAG
61828062 GATTAATTGTTCGTGGTTACTTTCAAAATTGATAAG
1 GATTAATTGTTCGTGGTTACTTTCAAAATTGATAAG
61828098 GATTAA
1 GATTAA
61828104 ACTATTCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (36 bp):
GATTAATTGTTCGTGGTTACTTTCAAAATTGATAAG
Found at i:61828841 original size:12 final size:12
Alignment explanation
Indices: 61828826--61828858 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
61828816 TTTTCCATTC
61828826 TTTTTTATTTTA
1 TTTTTTATTTTA
61828838 TTTTTTA-TTTA
1 TTTTTTATTTTA
*
61828849 TTTTTAATTT
1 TTTTTTATTT
61828859 AAAATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:61835519 original size:45 final size:44
Alignment explanation
Indices: 61835411--61835875 Score: 263
Period size: 45 Copynumber: 10.5 Consensus size: 44
61835401 TCTTGTCTTA
* * ***
61835411 TGGCGTGAAGTAGATC-AAAGATAACAGATCTCGCCTTCCCATAC
1 TGGCGTGAAGTAGATCGAAAGA-AACAGATCTTGTCTTCATGTAC
* * * *
61835455 TGGTGGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGTAC
1 TGG-CGTGAAGTAGATCGAAAGAA-ACAGATCTTGTCTTCATGTAC
* * * * * * *
61835501 TAGCGTGAAGTAGATCG-AATATACAGAGCTCGCCTTC-TCATAC
1 TGGCGTGAAGTAGATCGAAAGAAACAGATCTTGTCTTCAT-GTAC
* * * * *
61835544 TGGTGGCGAAGCAGATCGAAAGAAAGTAGATATTGTCTTCATGTA-
1 TGG-CGTGAAGTAGATCGAAAGAAA-CAGATCTTGTCTTCATGTAC
* * * ***
61835589 TCAGCGTGAAGTAGATC-AAAGTCAACAGATCTTGTCTCCCCATAC
1 T-GGCGTGAAGTAGATCGAAAG-AAACAGATCTTGTCTTCATGTAC
* * *
61835634 TGGTGGTGGAGTAGATC-AAAGAAAGTAGATCTTGTCTTCATGTA-
1 TGG-CGTGAAGTAGATCGAAAGAAA-CAGATCTTGTCTTCATGTAC
* * * * *
61835678 TCGGCATGAAGTAGATC-AAAGTCAACAGATCTTGTCTCCCTATAC
1 T-GGCGTGAAGTAGATCGAAAG-AAACAGATCTTGTCTTCATGTAC
* *
61835723 TGGTGGTGGAGTAGATC-AAAGAAAGCAGATCTTGTCTTCATGTAC
1 TGG-CGTGAAGTAGATCGAAAGAAA-CAGATCTTGTCTTCATGTAC
* * * * ***
61835768 T-GCATGAAGTAGATC-AAAGAAACAAATATTGTCTCCCCATAC
1 TGGCGTGAAGTAGATCGAAAGAAACAGATCTTGTCTTCATGTAC
* * * *
61835810 TGGTGGTGGAGTAGGTCG-AAGAAAACAGATCGTGTCTTCATGTAC
1 TGG-CGTGAAGTAGATCGAAAG-AAACAGATCTTGTCTTCATGTAC
61835855 TGGCGTGAAGTAGATC-AAAGA
1 TGGCGTGAAGTAGATCGAAAGA
61835876 TAGTAGGTCC
Statistics
Matches: 308, Mismatches: 90, Indels: 47
0.69 0.20 0.11
Matches are distributed among these distances:
42 16 0.05
43 36 0.12
44 96 0.31
45 125 0.41
46 34 0.11
47 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
TGGCGTGAAGTAGATCGAAAGAAACAGATCTTGTCTTCATGTAC
Found at i:61835580 original size:89 final size:87
Alignment explanation
Indices: 61835332--61835873 Score: 503
Period size: 89 Copynumber: 6.1 Consensus size: 87
61835322 TATTGGTAGC
* * * *
61835332 GAAGTGGATCGAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAA
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAA--AGAAAG
61835397 CAGATCTTGTCTT-ATG---GCGT
64 CAGATCTTGTCTTCATGTATGCGT
* *
61835417 GAAGTAGATCAAAGATAACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAATA-
1 GAAGTAGATCAAATAT-ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAA-AG
61835481 CAGATCTTGTCTTCATGTACTAGCGT
64 CAGATCTTGTCTTCATGTA-T-GCGT
* * * *
61835507 GAAGTAGATCGAATATACAGAGCTCGCCTTCTCATACTGGTGGCGAAGCAGATCGAAAGAAAGTA
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAGCA
*
61835572 GATATTGTCTTCATGTATCAGCGT
66 GATCTTGTCTTCATGTAT--GCGT
* * * * * *
61835596 GAAGTAGATCAAAGTCA-ACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-AAAGAAAG
1 GAAGTAGATCAAA-T-ATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAG
* *
61835659 TAGATCTTGTCTTCATGTATCGGCAT
64 CAGATCTTGTCTTCATGTAT--GCGT
* * * * *
61835685 GAAGTAGATCAAAGTCA-ACAGATCTTGTC-TCCCTATACTGGTGGTGGAGTAGATC-AAAGAAA
1 GAAGTAGATCAAA-T-ATACAGATCTCGCCTTCCC-ATACTGGTGGCGAAGCAGATCGAAAGAAA
*
61835747 GCAGATCTTGTCTTCATGTACTGCAT
63 GCAGATCTTGTCTTCATGTA-TGCGT
* * * * * * * * * * * *
61835773 GAAGTAGATCAAAGAAACAAATATTGTCTCCCCATACTGGTGGTGGAGTAGGTCG-AAGAAAACA
1 GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAGCA
*
61835837 GATCGTGTCTTCATGTACTGGCGT
66 GATCTTGTCTTCATGTA-T-GCGT
61835861 GAAGTAGATCAAA
1 GAAGTAGATCAAA
61835874 GATAGTAGGT
Statistics
Matches: 405, Mismatches: 34, Indels: 33
0.86 0.07 0.07
Matches are distributed among these distances:
84 15 0.04
85 17 0.04
86 42 0.10
87 56 0.14
88 41 0.10
89 183 0.45
90 50 0.12
91 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (87 bp):
GAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAGCA
GATCTTGTCTTCATGTATGCGT
Found at i:61835866 original size:176 final size:178
Alignment explanation
Indices: 61835332--61835874 Score: 583
Period size: 179 Copynumber: 3.1 Consensus size: 178
61835322 TATTGGTAGC
* * * *
61835332 GAAGTGGATCGAA-TATACAGATCTCGCCTTCC-CATACTGGTGGCGAAGCAGATCGAAGGAAAA
1 GAAGTAGATCAAAGTATACAGAGCTCGCC-TCCTCATACTGGTGGCGAAGCAGATCGAA--AGAA
* * * * * *
61835395 AACAGATCTTGTCTT-ATG-----GCGTGAAGTAGATCAAAGATAACAGATCTCGCCTTCCCATA
63 AGCAGATATTGTCTTCATGTATCAGCATGAAGTAGATCAAAGA-AACAGATCTTGTCTCCCCATA
* * * * *
61835454 CTGGTGGCGAAGCAGATCGAAGGAATACAGATCTTGTCTTCATGTACTAGCGT
127 CTGGTGGTGGAGTAGATCGAA-GAAAACAGATCTTGTCTTCATGTACTGGCGT
* * *
61835507 GAAGTAGATCGAA-TATACAGAGCTCGCCTTCTCATACTGGTGGCGAAGCAGATCGAAAGAAAGT
1 GAAGTAGATCAAAGTATACAGAGCTCGCCTCCTCATACTGGTGGCGAAGCAGATCGAAAGAAAGC
* *
61835571 AGATATTGTCTTCATGTATCAGCGTGAAGTAGATCAAAGTCAACAGATCTTGTCTCCCCATACTG
66 AGATATTGTCTTCATGTATCAGCATGAAGTAGATCAAAG-AAACAGATCTTGTCTCCCCATACTG
* ** *
61835636 GTGGTGGAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTA-TCGGCAT
130 GTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT-GGCGT
* * * * * *
61835685 GAAGTAGATCAAAGTCA-ACAGATCTTGTCTCC-CTATACTGGTGGTGGAGTAGATC-AAAGAAA
1 GAAGTAGATCAAAGT-ATACAGAGCTCGCCTCCTC-ATACTGGTGGCGAAGCAGATCGAAAGAAA
* * * *
61835747 GCAGATCTTGTCTTCATGTA-CTGCATGAAGTAGATCAAAGAAACAAATATTGTCTCCCCATACT
64 GCAGATATTGTCTTCATGTATCAGCATGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACT
* *
61835811 GGTGGTGGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGT
129 GGTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
61835861 GAAGTAGATCAAAG
1 GAAGTAGATCAAAG
61835875 ATAGTAGGTC
Statistics
Matches: 314, Mismatches: 41, Indels: 25
0.83 0.11 0.07
Matches are distributed among these distances:
173 15 0.05
174 5 0.02
175 51 0.16
176 77 0.25
177 20 0.06
178 62 0.20
179 83 0.26
180 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (178 bp):
GAAGTAGATCAAAGTATACAGAGCTCGCCTCCTCATACTGGTGGCGAAGCAGATCGAAAGAAAGC
AGATATTGTCTTCATGTATCAGCATGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
TGGTGGAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
Found at i:61836138 original size:14 final size:14
Alignment explanation
Indices: 61836119--61836149 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
61836109 TATTGGCGTG
61836119 AAGTAGATCGAAGA
1 AAGTAGATCGAAGA
61836133 AAGTAGATCGAAGA
1 AAGTAGATCGAAGA
61836147 AAG
1 AAG
61836150 CATATCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.29, T:0.13
Consensus pattern (14 bp):
AAGTAGATCGAAGA
Found at i:61837057 original size:12 final size:12
Alignment explanation
Indices: 61837042--61837074 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
61837032 TTTTCCATTC
61837042 TTTTTTATTTTA
1 TTTTTTATTTTA
61837054 TTTTTTA-TTTA
1 TTTTTTATTTTA
*
61837065 TTTTTAATTT
1 TTTTTTATTT
61837075 AAAATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:61843808 original size:21 final size:20
Alignment explanation
Indices: 61843769--61843808 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
61843759 AATTTAAAAG
**
61843769 AAATTTAATTTCATGATAAA
1 AAATTTAATTTCAAAATAAA
61843789 AAATTTATATTTCAAAATAA
1 AAATTTA-ATTTCAAAATAA
61843809 TTAGAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
AAATTTAATTTCAAAATAAA
Found at i:61843848 original size:28 final size:27
Alignment explanation
Indices: 61843786--61843850 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
61843776 ATTTCATGAT
*
61843786 AAAAAATTT-ATATTTCAAAATAATTA
1 AAAAAATTTAATATTTAAAAATAATTA
* * *
61843812 GAAAGATTTAATTTTTAAATAATAATTA
1 AAAAAATTTAATATTTAAA-AATAATTA
61843840 AAAAAATTTAA
1 AAAAAATTTAA
61843851 AAGATGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 7 0.23
27 7 0.23
28 17 0.55
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (27 bp):
AAAAAATTTAATATTTAAAAATAATTA
Found at i:61861667 original size:46 final size:46
Alignment explanation
Indices: 61861600--61861717 Score: 236
Period size: 46 Copynumber: 2.6 Consensus size: 46
61861590 ATTATACAGG
61861600 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
61861646 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
61861692 TCTTATCTCCCTGAGATTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
61861718 GCGGATTAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
Found at i:61861756 original size:44 final size:44
Alignment explanation
Indices: 61861593--61862423 Score: 312
Period size: 44 Copynumber: 18.7 Consensus size: 44
61861583 TAGGTTTATT
* **
61861593 ATACAGG-TCTTATCTCCCTG-AGATTACAGTGGAACAGACCAAAGA
1 ATACAGGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTAA-A
* * **
61861638 ATTTCA-GATCTTATCTCCCTG-AGATTACAGTGGAACAGACCAAAGA
1 A-TACAGGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTAA-A
* *
61861684 ATTTCA-GATCTTATCTCCCTG-AGATTACAGTGGAGCGGATTAAA
1 A-TACAGGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA
* * ** * ***
61861728 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGC
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
* * * **
61861771 AT-CAGG-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAGAA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTA-AA
* * * *
61861815 TTTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
** * **
61861857 AGCCAGAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCGA
1 ATACAG-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA
* ** * *
61861901 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
* * * ** * ***
61861945 ATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGA-TCGC
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
* * * **
61861988 AT-CAGG-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA--TTA-AA
* * * *
61862033 TTTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
** * **
61862075 AGCCAGAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCGA
1 ATACAG-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA
* ** * * * *
61862119 AGACACTATCCTATCTCTCTGAAGTTACAGTGAAGCGGATTAAA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
* * * *
61862163 ATAAAGGATCTTATCTCCCTG-AGATTACAGTAGAGTAGATT-GA
1 ATACAGGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA
* * * * * *
61862206 A-GCTAGTAATCCTATCTCTCTGAAATTACAGTGGAGCGGATTAAA
1 ATAC-AG-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
* * * * * * *
61862251 ATAAAGGATCTTATCTCTCTAAAGTTATAGTAGAGTAGATCACATCA
1 ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTA-A--A
* * * *
61862298 GATTGAAGCTAGAGATCTTATCCCCCTG-AGATTACAATGGAGTAGATT-GA
1 -A-T--A-C-AG-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA
* * * * *
61862348 A-GCTAGTAATCCTATCTCCCTGGAGTTACAGCGGAGCAGATTAAA
1 ATAC-AG-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
* *
61862393 ACCACA-GATCTTATCTCTCTGAAGTTACAGT
1 A-TACAGGATCTTATCTCCCTGAAGTTACAGT
61862424 AGAGTGGATC
Statistics
Matches: 594, Mismatches: 144, Indels: 97
0.71 0.17 0.12
Matches are distributed among these distances:
41 53 0.09
42 12 0.02
43 68 0.11
44 266 0.45
45 49 0.08
46 110 0.19
47 2 0.00
48 1 0.00
49 2 0.00
50 1 0.00
51 1 0.00
53 4 0.01
54 25 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATACAGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
Found at i:61861868 original size:130 final size:131
Alignment explanation
Indices: 61861641--61861934 Score: 344
Period size: 130 Copynumber: 2.2 Consensus size: 131
61861631 CCAAAGAATT
61861641 TCAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGA
* * * *
61861706 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG
66 GATTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGA-TTACAGCAGAGCAGATCG
61861770 CA
130 CA
* * * ** *
61861772 TCAGGTCTTATTTCCCTGAGGTTACAGTGGAGTAGACC-GAGAATTTCAGATCTTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGA
* * * * *
61861836 GGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
66 GATTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGCAGAGCAGATCG
*
61861900 AA
130 CA
* * *
61861902 GACACTATCCTATCTCCCTGA-AGTTACAGTGGA
1 -TCA-GATCTTATCTCCCTGAGA-TTACAGTGGA
61861935 GCGGATTAAA
Statistics
Matches: 136, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
129 2 0.01
130 76 0.56
131 36 0.26
132 22 0.16
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (131 bp):
TCAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGA
GATTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGC
A
Found at i:61862061 original size:46 final size:44
Alignment explanation
Indices: 61861600--61862114 Score: 322
Period size: 44 Copynumber: 11.7 Consensus size: 44
61861590 ATTATACAGG
* *
61861600 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACC-AAGAA-TTCAGA
* *
61861646 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACC-AAGAA-TTCAGA
* * ** **
61861692 TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAGAATTCA-GA
* * ** * * * *
61861736 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATC--GCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAGAATTCAGA
* * *
61861777 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAGAA-TTCAGA
** * *
61861822 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CCAAG-AATTCAGA
* * * *
61861866 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--CACTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CCAAGAATTCA-GA
* * * ** **
61861909 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAGAATTCA-GA
* ** * * * *
61861953 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATC--GCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAGAATTCAGA
* * *
61861994 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACC-AAGAA-TTCAGA
** * *
61862040 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CCAAG-AATTCAGA
* *
61862084 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
61862115 TCGAAGACAC
Statistics
Matches: 373, Mismatches: 76, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
41 57 0.15
42 7 0.02
43 33 0.09
44 127 0.34
45 35 0.09
46 112 0.30
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAGAATTCAGA
Found at i:61862134 original size:87 final size:87
Alignment explanation
Indices: 61861643--61862247 Score: 306
Period size: 87 Copynumber: 6.9 Consensus size: 87
61861633 AAAGAATTTC
* * * *
61861643 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCTTATCTCCCTGAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA---C-GATCTTATCTCTCTGAG
* * * * *
61861707 ATTACAGTGGAGCGGATT-AAAATAA
62 GTTACAGTGGAGCAGATTGAAGACAG
* ** * * * * * *
61861732 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCA-GGTCTTATTTCCCTGAGGT
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACACGATCTTATCTCTCTGAGGT
* ** *
61861794 TACAGTGGAGTAGACCG-AGA-ATTTC
64 TACAGTGGAGCAGATTGAAGACA---G
* * * * * *
61861819 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA-CGATCTTATCTCTCTGAGGTT
* *
61861884 ACAGCGGAGCAGATCGAAGACA-
65 ACAGTGGAGCAGATTGAAGACAG
** * * ** * * *
61861906 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGT
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-TCGAAGACACGATCTTATCTCTCTGAGGT
** * * * *
61861970 TACAGCAGAGTAGATCGCA-TCAG
64 TACAGTGGAGCAGATTGAAGACAG
* * * * * *
61861993 -G-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGA-ATTTCAGATCTTATCTCCCTGAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA---C-GATCTTATCTCTCTGAG
*
61862055 GTTACAGTGGAGCAGATTGAAGCCAG
62 GTTACAGTGGAGCAGATTGAAGACAG
* * * *
61862081 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCTCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACGATCTTATCTCTCTGAGGTTA
* * * * *
61862146 CAGTGAAGCGGATT-AAAATAA
66 CAGTGGAGCAGATTGAAGACAG
* * * * *
61862167 AGGATCTTATCTCCCTGAGATTACAGTAGAGTAGATTGAAG-CTA-GTAATCCTATCTCTCTGAA
1 A-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAC-ACG--ATCTTATCTCTCTGAG
* *
61862230 ATTACAGTGGAGCGGATT
62 GTTACAGTGGAGCAGATT
61862248 AAAATAAAGG
Statistics
Matches: 396, Mismatches: 91, Indels: 59
0.73 0.17 0.11
Matches are distributed among these distances:
83 1 0.00
84 3 0.01
85 55 0.14
86 37 0.09
87 161 0.41
88 40 0.10
89 33 0.08
90 64 0.16
91 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACGATCTTATCTCTCTGAGGTTA
CAGTGGAGCAGATTGAAGACAG
Found at i:61862143 original size:218 final size:217
Alignment explanation
Indices: 61861643--61862202 Score: 944
Period size: 218 Copynumber: 2.6 Consensus size: 217
61861633 AAAGAATTTC
* * * * * *
61861643 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCTTATCTCCCTG-A
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C-TATCCTATCTCCCTGAA
*
61861706 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
62 G-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGC
61861771 ATCAGGTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAGAATTTCAGATCTTATCTCCCTGA
126 ATCAGGTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAGAATTTCAGATCTTATCTCCCTGA
61861836 GGTTACAGTGGAGCAGATTGAAGCCAG
191 GGTTACAGTGGAGCAGATTGAAGCCAG
61861863 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
61861928 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAG
61861993 GTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGATCTTATCTCCCTGAGGTT
131 GTCTTATTTCCCTGAGGTTACAGTGGAGTAGACC-GAGAATTTCAGATCTTATCTCCCTGAGGTT
61862058 ACAGTGGAGCAGATTGAAGCCAG
195 ACAGTGGAGCAGATTGAAGCCAG
*
61862081 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCTCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
* * * *
61862146 CAGTGAAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGTAGAGTAGAT
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGAT
61862203 TGAAGCTAGT
Statistics
Matches: 325, Mismatches: 12, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
217 114 0.35
218 173 0.53
220 37 0.11
221 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAG
GTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAG
Found at i:61862440 original size:142 final size:142
Alignment explanation
Indices: 61862169--61862433 Score: 397
Period size: 142 Copynumber: 1.9 Consensus size: 142
61862159 TAAAATAAAG
* * *
61862169 GATCTTATCTCCCTGAGATTACAGTAGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAATTA
1 GATCTTATCCCCCTGAGATTACAATAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTA
* * * *
61862234 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAGAGTAGATCACATCAG
66 CAGCGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCAG
61862299 ATTGAAGCTAGA
131 ATTGAAGCTAGA
* * *
61862311 GATCTTATCCCCCTGAGATTACAATGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGGAGTTA
1 GATCTTATCCCCCTGAGATTACAATAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTA
* * *
61862376 CAGCGGAGCAGATTAAAACCACA-GATCTTATCTCTCTGAAGTTACAGTAGAGTGGATC
66 CAGCGGAGCAGATTAAAA-CAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATC
61862434 GTATCAGGTC
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
142 107 0.98
143 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (142 bp):
GATCTTATCCCCCTGAGATTACAATAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTA
CAGCGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCAG
ATTGAAGCTAGA
Found at i:61885343 original size:24 final size:23
Alignment explanation
Indices: 61885289--61885340 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
61885279 TAAATATATA
61885289 TTTTT-TATATATTTAAAAGTGC
1 TTTTTATATATATTTAAAAGTGC
*
61885311 TTGTTTATATATTATTTAGAAATTGC
1 TT-TTTATATA-TATTTA-AAAGTGC
61885337 TTTT
1 TTTT
61885341 ATAACATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 3 0.12
24 4 0.16
25 8 0.32
26 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.58
Consensus pattern (23 bp):
TTTTTATATATATTTAAAAGTGC
Found at i:61887332 original size:14 final size:14
Alignment explanation
Indices: 61887313--61887343 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
61887303 TATGATATGC
61887313 CATTGTACAGGACT
1 CATTGTACAGGACT
61887327 CATTGTACAGGACT
1 CATTGTACAGGACT
61887341 CAT
1 CAT
61887344 GGAGTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (14 bp):
CATTGTACAGGACT
Found at i:61897878 original size:4 final size:4
Alignment explanation
Indices: 61897869--61897902 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
61897859 TCATGTGTTT
61897869 TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
61897903 GTTAATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:61899619 original size:41 final size:41
Alignment explanation
Indices: 61899574--61899679 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
61899564 ACTGGCAATT
* * *
61899574 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
*
61899615 AGCCTGCTAGACGTATAGTCTGAAACATTTCACCAGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
61899656 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
61899680 TTATCTCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
Found at i:61900756 original size:16 final size:17
Alignment explanation
Indices: 61900735--61900767 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61900725 TTGCCCCTAA
61900735 TATTTA-TACTTTTTGC
1 TATTTAGTACTTTTTGC
*
61900751 TATTTAGTCCTTTTTGC
1 TATTTAGTACTTTTTGC
61900768 ACAAAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (17 bp):
TATTTAGTACTTTTTGC
Found at i:61904057 original size:23 final size:23
Alignment explanation
Indices: 61904022--61904143 Score: 127
Period size: 23 Copynumber: 5.3 Consensus size: 23
61904012 ATAAGTGCCG
*
61904022 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * * *
61904045 CATTGATACGTAGTCGTAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
* *
61904068 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
61904091 CACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
61904114 CATTGAAATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
61904137 CACTGAT
1 CACTGAT
61904144 CAATAACACT
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 79 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:61904109 original size:46 final size:46
Alignment explanation
Indices: 61904029--61904140 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 46
61904019 CCGCACTGAT
* * * * *
61904029 ATGTAGTCGAAGCTACCATTGATACGTAGTCGTAGCTATCACTAAA
1 ATGTAGCCGAAGCTACCACTAATACGTAGCCGTAGCTACCACTAAA
* * *
61904075 ATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTACCATTGAA
1 ATGTAGCCGAAGCTACCACTAATACGTAGCCGTAGCTACCACTAAA
*
61904121 ATATAGCCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
61904141 GATCAATAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTAATACGTAGCCGTAGCTACCACTAAA
Found at i:61905862 original size:51 final size:51
Alignment explanation
Indices: 61905785--61905921 Score: 127
Period size: 51 Copynumber: 2.7 Consensus size: 51
61905775 TGGTATAATG
* * * * *
61905785 ATAAATTTAGCCCTCAAAATTGACACATTCTATCAATTTG-TTATTGATTTA
1 ATAAATTTAACCCACAAAATTTACACATTCTATCAATTTGATCA-TCATTTA
* *
61905836 ATAAATTTAACCCACAACATTTACACATT-TCGTCAATTTGATCATCATTTA
1 ATAAATTTAACCCACAAAATTTACACATTCT-ATCAATTTGATCATCATTTA
*** *
61905887 ACGTATTTAACCCATAATAA-TTACACATTCTATCA
1 ATAAATTTAACCCACAA-AATTTACACATTCTATCA
61905922 GCATTTACGC
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
50 1 0.01
51 64 0.93
52 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (51 bp):
ATAAATTTAACCCACAAAATTTACACATTCTATCAATTTGATCATCATTTA
Found at i:61906532 original size:32 final size:32
Alignment explanation
Indices: 61906491--61906552 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
61906481 ATTTTTATTT
*
61906491 AGTTAAATTTGA-CTTTAAACCCTTTAAAAAAA
1 AGTTAAATTTGATCATT-AACCCTTTAAAAAAA
* *
61906523 AGTTGAATTTGATCATTAACCTTTTAAAAA
1 AGTTAAATTTGATCATTAACCCTTTAAAAA
61906553 GAGTCAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (32 bp):
AGTTAAATTTGATCATTAACCCTTTAAAAAAA
Found at i:61906651 original size:21 final size:18
Alignment explanation
Indices: 61906624--61906667 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
61906614 ATTTCATATT
*
61906624 ATTTTTTTAAAAATTTTATG
1 ATTTTTTTTAAAA-TTT-TG
*
61906644 ATTTTTTTTGAAATTTTG
1 ATTTTTTTTAAAATTTTG
61906662 ATTTTT
1 ATTTTT
61906668 GAATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
ATTTTTTTTAAAATTTTG
Found at i:61909322 original size:24 final size:24
Alignment explanation
Indices: 61909295--61909345 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
61909285 ATCAAAGTCG
* *
61909295 AATATATTATGCTAATAAATACTA
1 AATATATTATACCAATAAATACTA
*
61909319 AATATATTATACCCATAAATACTA
1 AATATATTATACCAATAAATACTA
61909343 AAT
1 AAT
61909346 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (24 bp):
AATATATTATACCAATAAATACTA
Found at i:61910630 original size:34 final size:35
Alignment explanation
Indices: 61910570--61910636 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
61910560 CAAACACCAG
*
61910570 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* * *
61910605 AAAACATTTTCCCG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
61910637 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:61919939 original size:17 final size:17
Alignment explanation
Indices: 61919899--61919946 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
61919889 CGTTTATCAA
61919899 TTTTTATAATCAAACTC
1 TTTTTATAATCAAACTC
* * *
61919916 -ATTTATAATTAAGCTC
1 TTTTTATAATCAAACTC
61919932 TTTTTATATATCAAA
1 TTTTTATA-ATCAAA
61919947 GATAAAAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
16 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTTATAATCAAACTC
Found at i:61924550 original size:4 final size:4
Alignment explanation
Indices: 61924541--61924576 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
61924531 CAGCTTCAAC
61924541 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
61924577 TATATATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:61931870 original size:14 final size:15
Alignment explanation
Indices: 61931849--61931888 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
61931839 TAATAGTCTA
*
61931849 TATATAATTTACAAT
1 TATATAATTTAAAAT
61931864 TAT-TAATTTAAAAT
1 TATATAATTTAAAAT
*
61931878 TTTATAATTTA
1 TATATAATTTA
61931889 TAAAGGAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATAATTTAAAAT
Found at i:61934380 original size:72 final size:72
Alignment explanation
Indices: 61934263--61934406 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
61934253 GATAAGGTCC
61934263 CTAGAATTTTTAGATCATCACATTTTAGCCTGGTGCGGCCGAGTGCTCAAGCTGCACCTGAATTT
1 CTAGAATTTTTAGATCATCACATTTTAGCCTGGTGCGGCCGAGTGCTCAAGCTGCACCTGAATTT
61934328 TTTTAAA
66 TTTTAAA
61934335 CTAGAATTTTTAGATCATCACATTTTAGCCTGGTGCGGCCGAGTGCTCAAGCTGCACCTGAATTT
1 CTAGAATTTTTAGATCATCACATTTTAGCCTGGTGCGGCCGAGTGCTCAAGCTGCACCTGAATTT
61934400 TTTTAAA
66 TTTTAAA
61934407 TAAAGTGATG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (72 bp):
CTAGAATTTTTAGATCATCACATTTTAGCCTGGTGCGGCCGAGTGCTCAAGCTGCACCTGAATTT
TTTTAAA
Found at i:61946341 original size:73 final size:73
Alignment explanation
Indices: 61946255--61946440 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
61946245 ACAACTTGAC
*
61946255 AACTTAGTTGGAATACAACTAAGTTTCATTATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61946320 CACTAACA
66 CACTAACA
*
61946328 AACTTAGTTGGAATACAACTAAGTTTCATCATTATATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61946393 CACTAACA
66 CACTAACA
*
61946401 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
61946441 AATAATAATA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 109 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:61946449 original size:3 final size:3
Alignment explanation
Indices: 61946441--61946475 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61946431 ATTACATCCA
61946441 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61946476 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61950781 original size:73 final size:73
Alignment explanation
Indices: 61950694--61950833 Score: 280
Period size: 73 Copynumber: 1.9 Consensus size: 73
61950684 ACAACTTGAC
61950694 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61950759 CACTAACA
66 CACTAACA
61950767 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61950832 CA
66 CA
61950834 TGTAATAGCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:61952927 original size:52 final size:48
Alignment explanation
Indices: 61952908--61953110 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
61952898 TGACAAGTGG
* *
61952908 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
61952954 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
61953006 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
61953052 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
61953098 AAAGTGATAAGTG
1 AAAGTGATAAGTG
61953111 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:61952962 original size:98 final size:98
Alignment explanation
Indices: 61952842--61953110 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
61952832 TTTGAGTACT
*
61952842 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
61952907 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
61952940 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
61953005 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
61953038 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
61953103 GATAAGTG
65 GAAAAGTG
61953111 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:61953118 original size:37 final size:37
Alignment explanation
Indices: 61953074--61953219 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
61953064 GATAGCTTTA
*
61953074 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61953111 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
61953148 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
61953185 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61953220 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:61953931 original size:3 final size:3
Alignment explanation
Indices: 61953923--61953948 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61953913 ATTACATCCA
61953923 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
61953949 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61962504 original size:51 final size:51
Alignment explanation
Indices: 61962449--61962567 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
61962439 GTCCTCAAAG
*
61962449 TTTACACATTCTATCAATTTG-TTATTGATTTAACAAATTTAACCCACAATA
1 TTTACACATTCTATCAATTTGATCA-TGATTTAACAAATTTAACCCACAATA
* * **
61962500 TTTACACATT-TCGTCAATTTGATCATGATTTAACATATTTAACCCGTAATA
1 TTTACACATTCT-ATCAATTTGATCATGATTTAACAAATTTAACCCACAATA
* *
61962551 ATTATACATTCTATCAA
1 TTTACACATTCTATCAA
61962568 CATTTACGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
50 1 0.02
51 53 0.93
52 3 0.05
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (51 bp):
TTTACACATTCTATCAATTTGATCATGATTTAACAAATTTAACCCACAATA
Found at i:61963309 original size:17 final size:17
Alignment explanation
Indices: 61963269--61963312 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
61963259 GTATTTCATA
61963269 TTATTTTTTTAAATTTTT
1 TTATTTTTTTAAA-TTTT
61963287 TATATTTTTTTGAAA-TTT
1 T-TATTTTTTT-AAATTTT
61963305 TTATTTTT
1 TTATTTTT
61963313 GAATATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 9 0.38
20 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
TTATTTTTTTAAATTTT
Found at i:61963428 original size:22 final size:20
Alignment explanation
Indices: 61963403--61963448 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
61963393 TCTTACAGGG
61963403 ATATAATAAAATATTAATATAT
1 ATATAATAAAATA-T-ATATAT
*
61963425 ATATATTAAAATATATATAT
1 ATATAATAAAATATATATAT
61963445 ATAT
1 ATAT
61963449 GTTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 1 0.04
22 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATAATAAAATATATATAT
Found at i:61963432 original size:14 final size:14
Alignment explanation
Indices: 61963413--61963444 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
61963403 ATATAATAAA
*
61963413 ATATTAATATATAT
1 ATATTAAAATATAT
61963427 ATATTAAAATATAT
1 ATATTAAAATATAT
61963441 ATAT
1 ATAT
61963445 ATATGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTAAAATATAT
Found at i:61963442 original size:20 final size:22
Alignment explanation
Indices: 61963403--61963453 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
61963393 TCTTACAGGG
*
61963403 ATATAATAAAATATTAATATAT
1 ATATATTAAAATATTAATATAT
61963425 ATATATTAAAATA-T-ATATAT
1 ATATATTAAAATATTAATATAT
*
61963445 ATATGTTAA
1 ATATATTAA
61963454 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 14 0.52
21 1 0.04
22 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATATTAAAATATTAATATAT
Found at i:61967184 original size:30 final size:29
Alignment explanation
Indices: 61967148--61967205 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
61967138 GTGATTTCTG
*
61967148 AAAATTGAATC-AAATCAATATTTCATATAT
1 AAAATTGAA-CAAAATCAA-AGTTCATATAT
*
61967178 AAAATTGTACAAAATCAAAGTTCATATA
1 AAAATTGAACAAAATCAAAGTTCATATA
61967206 CAACATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTGAACAAAATCAAAGTTCATATAT
Found at i:61967624 original size:19 final size:18
Alignment explanation
Indices: 61967597--61967635 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
61967587 AAGTTTATAA
*
61967597 TTTTTTATATTATGTTAT
1 TTTTTTATATTATGTAAT
61967615 TTTTTATATATTATGTAAT
1 TTTTT-TATATTATGTAAT
61967634 TT
1 TT
61967636 AGAACACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTTATATTATGTAAT
Found at i:61968371 original size:21 final size:23
Alignment explanation
Indices: 61968329--61968371 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
61968319 CTGCCACCGC
*
61968329 CTCTGACCAGCGCCGCACCTGCT
1 CTCTGACCAGCGCCGCAACTGCT
*
61968352 CTCTG-CCATCGCC-CAACTGC
1 CTCTGACCAGCGCCGCAACTGC
61968372 ACCTGCAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.14, C:0.49, G:0.19, T:0.19
Consensus pattern (23 bp):
CTCTGACCAGCGCCGCAACTGCT
Found at i:61973130 original size:9 final size:9
Alignment explanation
Indices: 61973116--61973172 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
61973106 TTTGGTTAAA
61973116 AATTAACCG
1 AATTAACCG
61973125 AATTAACCG
1 AATTAACCG
61973134 AATTAACCG
1 AATTAACCG
*
61973143 AATT-CCCG
1 AATTAACCG
*
61973151 AATTACCCG
1 AATTAACCG
*
61973160 AATTAACCT
1 AATTAACCG
61973169 AATT
1 AATT
61973173 GAATCATACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
8 7 0.16
9 37 0.84
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:61973151 original size:26 final size:26
Alignment explanation
Indices: 61973122--61973172 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
61973112 TAAAAATTAA
61973122 CCGAATTAACCGAATTAACCGAATTC
1 CCGAATTAACCGAATTAACCGAATTC
* *
61973148 CCGAATTACCCGAATTAACCTAATT
1 CCGAATTAACCGAATTAACCGAATT
61973173 GAATCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.25
Consensus pattern (26 bp):
CCGAATTAACCGAATTAACCGAATTC
Found at i:61973997 original size:15 final size:16
Alignment explanation
Indices: 61973974--61974007 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
61973964 AAAAAGAGTC
61973974 AAATATTTTTTT-ATG
1 AAATATTTTTTTAATG
*
61973989 AAATCTTTTTTTAATG
1 AAATATTTTTTTAATG
61974005 AAA
1 AAA
61974008 ACATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
AAATATTTTTTTAATG
Found at i:61975684 original size:125 final size:125
Alignment explanation
Indices: 61975462--61975707 Score: 384
Period size: 125 Copynumber: 2.0 Consensus size: 125
61975452 ACAGGTGTCC
* * * *
61975462 GAAATGGAACATAAATATGACAAGACAACCACGGCTTTTCAAGAACTCGTTGATGGCCTTGTAGC
1 GAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAGA
* *
61975527 GAAAATTGACTCCAAGGACAGTAGTTTGCGGGATTGGGAGCTTCGATATAAGGAAATGGG
66 GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAATGGG
* ** * * *
61975587 GAAATGGTACATAAATATGATGAGACGACCGCAGCTCTTCAAGGACTCGTCGATGGCCTTGTAGA
1 GAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAGA
61975652 GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAA
66 GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAA
61975708 CCGTGAGACA
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (125 bp):
GAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAGA
GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAATGGG
Found at i:61979470 original size:21 final size:21
Alignment explanation
Indices: 61979444--61979484 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61979434 ATCTGCTCAA
* *
61979444 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61979465 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61979485 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61982914 original size:30 final size:30
Alignment explanation
Indices: 61982878--61982934 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
61982868 CAAAATTAGG
**
61982878 CTCCATATTTACAAACCTAAATTAAACTTA
1 CTCCATATTTACAAACAGAAATTAAACTTA
61982908 CTCCATATTTACAAACAGAAATTAAAC
1 CTCCATATTTACAAACAGAAATTAAAC
61982935 CTACCTACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.30
Consensus pattern (30 bp):
CTCCATATTTACAAACAGAAATTAAACTTA
Found at i:61983246 original size:17 final size:17
Alignment explanation
Indices: 61983228--61983285 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
61983218 ATGTGTAATA
61983228 AAAAATT-ATAAAAAAT
1 AAAAATTAATAAAAAAT
*
61983244 AAAAATTAATAAAATTAT
1 AAAAATTAATAAAA-AAT
* *
61983262 TAAATTCTAATAAAAAAT
1 AAAAAT-TAATAAAAAAT
61983280 ATAAAA
1 A-AAAA
61983286 ATATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 7 0.22
17 6 0.19
18 8 0.25
19 11 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTAATAAAAAAT
Found at i:61983284 original size:19 final size:18
Alignment explanation
Indices: 61983224--61983285 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 18
61983214 CGTGATGTGT
*
61983224 AATAAAAAATT-ATAAAA
1 AATATAAAATTAATAAAA
61983241 AATA-AAAATTAAT-AAA
1 AATATAAAATTAATAAAA
* *
61983257 ATTATTAAATTCTAATAAAA
1 AATA-TAAAAT-TAATAAAA
61983277 AATATAAAA
1 AATATAAAA
61983286 ATATTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
16 12 0.33
17 6 0.17
18 4 0.11
19 8 0.22
20 6 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAAAATTAATAAAA
Found at i:61983518 original size:9 final size:9
Alignment explanation
Indices: 61983504--61983641 Score: 92
Period size: 9 Copynumber: 15.1 Consensus size: 9
61983494 TTTTGGTACA
61983504 ATAATTTTT
1 ATAATTTTT
61983513 ATAATTTTTTT
1 ATAA--TTTTT
*
61983524 ATAAATTTT
1 ATAATTTTT
61983533 AT-ATTTTT
1 ATAATTTTT
61983541 A-AATTTTT
1 ATAATTTTT
61983549 ATAATTTTCT
1 ATAATTTT-T
*
61983559 -TACTATTTT
1 ATAAT-TTTT
*
61983568 ATAAAATTTT
1 AT-AATTTTT
*
61983578 ATAACTTTTGC
1 ATAA-TTTT-T
*
61983589 AT-TTTTTT
1 ATAATTTTT
61983597 ATAA-TTTT
1 ATAATTTTT
61983605 A-AATATTTT
1 ATAAT-TTTT
61983614 ATAATTTTT
1 ATAATTTTT
61983623 A-AATTGTTT
1 ATAATT-TTT
*
61983632 ATAAATTTT
1 ATAATTTTT
61983641 A
1 A
61983642 ACTCTTTTTT
Statistics
Matches: 102, Mismatches: 11, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 24 0.24
9 44 0.43
10 20 0.20
11 12 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:61983553 original size:36 final size:36
Alignment explanation
Indices: 61983504--61983641 Score: 124
Period size: 36 Copynumber: 3.8 Consensus size: 36
61983494 TTTTGGTACA
61983504 ATAATTTTTATAATTTTTTTATAAATTTTATATTTTT
1 ATAATTTTTATAATTTTTTTAT-AATTTTATATTTTT
* *
61983541 A-AATTTTTATAATTTTCTTACT-ATTTTATAAAATTTT
1 ATAATTTTTATAATTTTTTTA-TAATTTTAT--ATTTTT
* ** *
61983578 ATAACTTTT-GCATTTTTTTATAATTTTAAATATTTT
1 ATAATTTTTATAATTTTTTTATAATTTTATAT-TTTT
*
61983614 ATAATTTTTA-AA-TTGTTTATAAATTTTA
1 ATAATTTTTATAATTTTTTTAT-AATTTTA
61983642 ACTCTTTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
35 15 0.18
36 39 0.48
37 22 0.27
38 6 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (36 bp):
ATAATTTTTATAATTTTTTTATAATTTTATATTTTT
Found at i:61983581 original size:54 final size:51
Alignment explanation
Indices: 61983520--61983641 Score: 122
Period size: 54 Copynumber: 2.3 Consensus size: 51
61983510 TTTATAATTT
*
61983520 TTTTATAAATTTTATATTTTTA-AATTTTTATAATTTTCTTACT-ATTTTATAAAA
1 TTTTATAAATTTTATATTTTTATAA-TTTTA-AATATT-TTA-TAATTTT-TAAAA
* * *
61983574 TTTTATAACTTTTGCATTTTTTTATAATTTTAAATATTTTATAATTTTTAAAT
1 TTTTATAAATTTT--ATATTTTTATAATTTTAAATATTTTATAATTTTTAAAA
61983627 TGTTTATAAATTTTA
1 T-TTTATAAATTTTA
61983642 ACTCTTTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
52 1 0.02
53 6 0.10
54 31 0.53
55 5 0.09
56 13 0.22
57 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (51 bp):
TTTTATAAATTTTATATTTTTATAATTTTAAATATTTTATAATTTTTAAAA
Found at i:61985770 original size:31 final size:29
Alignment explanation
Indices: 61985706--61985774 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
61985696 ACGATAACGT
* *
61985706 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
*
61985735 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAATGTAACAT--GTCAAACAA
61985766 AAGTGACTA
1 AAGTGACTA
61985775 TTTTGGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:61990428 original size:8 final size:8
Alignment explanation
Indices: 61990417--61990445 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
61990407 TCTTTTTACT
61990417 ATTTTAAA
1 ATTTTAAA
61990425 ATTTTAAA
1 ATTTTAAA
61990433 ATTTTAAA
1 ATTTTAAA
61990441 ATTTT
1 ATTTT
61990446 TTAAAGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTAAA
Found at i:61990647 original size:22 final size:24
Alignment explanation
Indices: 61990620--61990671 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
61990610 TTAAAAAAAT
*
61990620 ATATATTAAAAT-TTAAAATTTAA
1 ATATATTAAAATAATAAAATTTAA
*
61990643 A-ATATTAAAGTAATAAAATTTAA
1 ATATATTAAAATAATAAAATTTAA
61990666 ATATAT
1 ATATAT
61990672 CAATGTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 12 0.48
24 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATTAAAATAATAAAATTTAA
Found at i:61991853 original size:16 final size:16
Alignment explanation
Indices: 61991832--61991867 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
61991822 CCTTTATTCA
61991832 TTTATTTTTGTGTATC
1 TTTATTTTTGTGTATC
61991848 TTTA---TTGTGTATC
1 TTTATTTTTGTGTATC
61991861 TTTATTT
1 TTTATTT
61991868 ATTTTGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 6
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.76
16 4 0.24
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (16 bp):
TTTATTTTTGTGTATC
Found at i:61991857 original size:13 final size:13
Alignment explanation
Indices: 61991839--61991866 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61991829 TCATTTATTT
61991839 TTGTGTATCTTTA
1 TTGTGTATCTTTA
61991852 TTGTGTATCTTTA
1 TTGTGTATCTTTA
61991865 TT
1 TT
61991867 TATTTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTGTATCTTTA
Found at i:61997070 original size:10 final size:10
Alignment explanation
Indices: 61997040--61997072 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
61997030 GGCATGGATT
61997040 ATATATAT-A
1 ATATATATGA
61997049 TATATATATGA
1 -ATATATATGA
61997060 ATATATATGA
1 ATATATATGA
61997070 ATA
1 ATA
61997073 GGTTGCAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 21 0.95
11 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (10 bp):
ATATATATGA
Found at i:62002989 original size:4 final size:4
Alignment explanation
Indices: 62002980--62003005 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62002970 CATGGGTTTT
62002980 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
62003006 GTTAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:62004926 original size:18 final size:18
Alignment explanation
Indices: 62004899--62005048 Score: 114
Period size: 18 Copynumber: 8.2 Consensus size: 18
62004889 ACATATAAGA
*
62004899 ATATAATTTTATTAAATT
1 ATATATTTTTATTAAATT
62004917 ATATATTTTTATTAAATT
1 ATATATTTTTATTAAATT
* * * *
62004935 ATATTAAATTATATTTAATA
1 ATA-T-ATTTTTATTAAATT
*
62004955 ATA-ATTATT-TTAAATT
1 ATATATTTTTATTAAATT
*
62004971 ATAT-TTTATAGTATTATA-T
1 ATATATTT-T--TATTAAATT
*
62004990 AT-TATGATTTTAGTAAATT
1 ATATAT--TTTTATTAAATT
62005009 CATATA-TTTTATTAAATT
1 -ATATATTTTTATTAAATT
62005027 ATATATTTTTATTAAATT
1 ATATATTTTTATTAAATT
62005045 ATAT
1 ATAT
62005049 TTAATAATAA
Statistics
Matches: 103, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
16 10 0.10
17 9 0.09
18 53 0.51
19 7 0.07
20 20 0.19
21 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (18 bp):
ATATATTTTTATTAAATT
Found at i:62004939 original size:10 final size:10
Alignment explanation
Indices: 62004903--62004975 Score: 59
Period size: 10 Copynumber: 7.9 Consensus size: 10
62004893 ATAAGAATAT
*
62004903 AATTTTATTA
1 AATTATATTA
62004913 AATTATA-T-
1 AATTATATTA
* *
62004921 ATTTTTATTA
1 AATTATATTA
62004931 AATTATATTA
1 AATTATATTA
*
62004941 AATTATATTT
1 AATTATATTA
62004951 AA-TA-A-T-
1 AATTATATTA
*
62004957 AATTATTTTA
1 AATTATATTA
62004967 AATTATATT
1 AATTATATT
62004976 TTATAGTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 6 0.12
9 5 0.10
10 33 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTATATTA
Found at i:62004949 original size:26 final size:27
Alignment explanation
Indices: 62004901--62004978 Score: 88
Period size: 26 Copynumber: 2.9 Consensus size: 27
62004891 ATATAAGAAT
* *
62004901 ATAATTTTATTAAATTATATATTT-TTA
1 ATAATTATATTAAATTATAT-TTTAATA
*
62004928 TTAAATTATATTAAATTATA-TTTAATA
1 AT-AATTATATTAAATTATATTTTAATA
*
62004955 ATAATTATTTTAAATTATATTTTA
1 ATAATTATATTAAATTATATTTTA
62004979 TAGTATTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 19 0.44
27 8 0.19
28 16 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATAATTATATTAAATTATATTTTAATA
Found at i:62005299 original size:46 final size:44
Alignment explanation
Indices: 62005207--62005300 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
62005197 ATTACACCAT
* * *
62005207 CATTCCCTTCAACCAAACACAAGAATATTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
* *
62005251 CATTCCATTCAACCAAACAAAAGGATTACCTATTACGCCTTTATTC
1 CATTCCATTCAACCAAACAAAA-GAATA-CTATTACGCCTCTATTC
62005297 CATT
1 CATT
62005301 ACGCCTCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 20 0.47
45 4 0.09
46 19 0.44
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
Found at i:62005303 original size:16 final size:16
Alignment explanation
Indices: 62005282--62005334 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
62005272 AGGATTACCT
*
62005282 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
62005298 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
62005314 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
62005330 ATTAC
1 ATTAC
62005335 AGCGAACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:62007761 original size:17 final size:18
Alignment explanation
Indices: 62007739--62007773 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62007729 TTTGTGGGAA
*
62007739 ATTTTTAT-TTTTTTAAT
1 ATTTTTATAATTTTTAAT
62007756 ATTTTTATAATTTTTAAT
1 ATTTTTATAATTTTTAAT
62007774 TTATTGGCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATAATTTTTAAT
Found at i:62008920 original size:24 final size:24
Alignment explanation
Indices: 62008893--62008945 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
62008883 ATCAAAGTCG
* *
62008893 AATATATTATGCTAATAAATGCTA
1 AATATATTATACTAATAAATACTA
*
62008917 AATATATTATACTCATAAATACTA
1 AATATATTATACTAATAAATACTA
62008941 AATAT
1 AATAT
62008946 TCTAGAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
AATATATTATACTAATAAATACTA
Found at i:62013303 original size:101 final size:102
Alignment explanation
Indices: 62013186--62013370 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
62013176 AAAGTGATGG
*
62013186 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
62013249 ACTATGTACAGGCTACTATGCGTATCGGATAGCTTCGA
65 ACTATGTACAGGCTACTATGCGTATCGGATAGCTTCGA
* * * *
62013287 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
62013352 CTATGTGCAGGCTACTATG
66 CTATGTACAGGCTACTATG
62013371 TGAACCCATA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTATCGGATAGCTTCGA
Found at i:62013305 original size:51 final size:50
Alignment explanation
Indices: 62013186--62013370 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
62013176 AAAGTGATGG
* * * * * *
62013186 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-AT-GA
* *
62013236 TCGCATGTGTAGTACTATGTACAGGCTACTATGCGTATCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAG-TAT-GA
* * * *
62013287 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-ATGA
62013338 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
62013371 TGAACCCATA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
50 36 0.32
51 75 0.66
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTATGA
Found at i:62013372 original size:26 final size:26
Alignment explanation
Indices: 62013292--62013372 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
62013282 TTCGATCACG
62013292 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
62013318 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
62013343 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
62013369 TGTG
1 TGTG
62013373 AACCCATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:62013443 original size:42 final size:41
Alignment explanation
Indices: 62013392--62013578 Score: 137
Period size: 42 Copynumber: 4.7 Consensus size: 41
62013382 CATTGATTAT
62013392 AAGGTGGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCCACCATATCTT-AATGTGA
*
62013435 AAGGGGTTGCTAAGTGCTGATTCC-CCGA-ATC---A-CTG-
1 AAGGGGTTGCTAAGTGCTGATTCCACC-ATATCTTAATGTGA
* ** *
62013470 --GTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGA
1 AAGGGGTTGCTAAGTGCTGATTCCACCATAT-CTT-AATGTGA
* * *
62013511 AAGGGGTTGCTATGTGCTGATTCC-CCGTATCATTGAT-T-A
1 AAGGGGTTGCTAAGTGCTGATTCCACCATATC-TTAATGTGA
*
62013550 TAAGGTGGTTGCTAAGTGATGATTCCACC
1 -AAGG-GGTTGCTAAGTGCTGATTCCACC
62013579 GGGATCCTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 33
0.71 0.08 0.20
Matches are distributed among these distances:
33 21 0.18
34 3 0.03
35 1 0.01
36 2 0.02
37 1 0.01
39 1 0.01
40 7 0.06
41 25 0.22
42 30 0.26
43 24 0.21
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCACCATATCTTAATGTGA
Found at i:62013489 original size:75 final size:76
Alignment explanation
Indices: 62013394--62013542 Score: 237
Period size: 76 Copynumber: 2.0 Consensus size: 76
62013384 TTGATTATAA
62013394 GGTGGTTGCTAAGTGCTGATTCCACCATAT-CTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTC
1 GGTGGTTGCTAAGTGCTGATTCCACCATATCCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTC
62013458 CCCGAATCACT
66 CCCGAATCACT
** * * *
62013469 GGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTC
1 GGTGGTTGCTAAGTGCTGATTCCACCATATCCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTC
*
62013534 CCCGTATCA
66 CCCGAATCA
62013543 TTGATTATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 28 0.42
76 39 0.58
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (76 bp):
GGTGGTTGCTAAGTGCTGATTCCACCATATCCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTC
CCCGAATCACT
Found at i:62013533 original size:43 final size:42
Alignment explanation
Indices: 62013469--62013622 Score: 168
Period size: 44 Copynumber: 3.6 Consensus size: 42
62013459 CCGAATCACT
* * *
62013469 GGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAA
1 GGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT--AA
*
62013513 GG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTATAA
1 GGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAA
* * * ** *
62013553 GGTGGTTGCTAAGTGATGATTCCACCGGGATCCTTTGAACATGA
1 GGTGGTTGCTAAGTGCTGATTCCACC-GTAT-CATTGATTATAA
62013597 GGTGGTTGCTAAGTGCTGATTCCACC
1 GGTGGTTGCTAAGTGCTGATTCCACC
62013623 ATGTAACGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.04
41 18 0.19
42 15 0.16
43 22 0.23
44 35 0.37
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (42 bp):
GGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAA
Found at i:62050886 original size:17 final size:18
Alignment explanation
Indices: 62050849--62050886 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
62050839 AGGCGGAGAT
62050849 GGTGGCCTGAGCTGGTTAA
1 GGTGGCCTGAGCT-GTTAA
62050868 GGTGGCCTGAGCT-TTAA
1 GGTGGCCTGAGCTGTTAA
62050885 GG
1 GG
62050887 CCGAGGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.26
Consensus pattern (18 bp):
GGTGGCCTGAGCTGTTAA
Found at i:62051414 original size:3 final size:3
Alignment explanation
Indices: 62051406--62051440 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
62051396 GAATTAGTCC
62051406 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62051441 CCTATTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62051928 original size:22 final size:23
Alignment explanation
Indices: 62051875--62051928 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
62051865 AAATATACTT
*
62051875 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
62051898 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
62051920 TATATATAT
1 TATATATAT
62051929 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:62064430 original size:99 final size:99
Alignment explanation
Indices: 62064259--62064894 Score: 1060
Period size: 99 Copynumber: 6.4 Consensus size: 99
62064249 AAACCATAGT
*
62064259 TTGCAATTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
62064324 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
62064358 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
62064423 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
62064457 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
*
62064522 TGAAGCTACAACAGCGAATCTCATTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
62064556 TTGCAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTT-CTGGCAATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
* *
62064620 TGAAGCTACAACGGTGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
62064654 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
* *
62064719 TGAAGCTACAACAGCGAATCTTATTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
62064753 TTGTAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTT-CTGGCAATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
*
62064817 TGAAGCTACAACAGCGAATCTCACTTCTCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
*
62064851 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
62064895 TCGGCAAGAC
Statistics
Matches: 496, Mismatches: 39, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
98 176 0.35
99 320 0.65
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (99 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:62064709 original size:197 final size:197
Alignment explanation
Indices: 62064259--62064894 Score: 1128
Period size: 197 Copynumber: 3.2 Consensus size: 197
62064249 AAACCATAGT
* * *
62064259 TTGCAATTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
* * *
62064324 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCATTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
* *
62064389 GAATCTTACTTCCAGGCGATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
131 GAATCTTACTT-CTGGCAATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
62064454 ACA
195 ACA
*
62064457 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
62064522 TGAAGCTACAACAGCGAATCTCATTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
66 TGAAGCTACAACAGCGAATCTCATTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
* *
62064587 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGA
131 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGA
62064652 CA
196 CA
62064654 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
* *
62064719 TGAAGCTACAACAGCGAATCTTATTTCCCCGACATTGTAATTTAAAAGATCGAAGCCACAACAGT
66 TGAAGCTACAACAGCGAATCTCATTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
*
62064784 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCTCCGA
131 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGA
62064849 CA
196 CA
*
62064851 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
62064895 TCGGCAAGAC
Statistics
Matches: 420, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
197 286 0.68
198 134 0.32
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (197 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
TGAAGCTACAACAGCGAATCTCATTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGA
CA
Found at i:62064794 original size:296 final size:296
Alignment explanation
Indices: 62064259--62064894 Score: 1058
Period size: 296 Copynumber: 2.1 Consensus size: 296
62064249 AAACCATAGT
* *
62064259 TTGCAATTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCAATGCAGTGGAACAGAT
62064324 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
*
62064389 GAATCTTACTTCCAGGCGATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
131 GAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
* * * *
62064454 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCA
196 ACATTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTTACTT-CAGGCAATGCAGCGGAACA
*
62064519 GATTGAAGCTACAACAGCGAATCTCATTTCCCCGACA
260 GATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
62064556 TTGCAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTT-CTGGCAATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCAATGCAGTGGAACAGAT
* *
62064620 TGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
* * *
62064685 GAATCTTACTTCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACAGCGAATCTTATTTCCCCG
131 GAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
* * * *
62064750 ACATTGTAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTTCTGGCAATGCAGTGGAACAG
196 ACATTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCAGGCAATGCAGCGGAACAG
*
62064815 ATTGAAGCTACAACAGCGAATCTCACTTCTCCGACA
261 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
*
62064851 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
62064895 TCGGCAAGAC
Statistics
Matches: 314, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
295 89 0.28
296 186 0.59
297 39 0.12
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (296 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCAATGCAGTGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
GAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
ACATTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCAGGCAATGCAGCGGAACAG
ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:62066227 original size:3 final size:3
Alignment explanation
Indices: 62066219--62066262 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
62066209 GAATTAGTCC
* * *
62066219 TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62066263 CCTATTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:62066751 original size:22 final size:23
Alignment explanation
Indices: 62066698--62066751 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
62066688 AAATATACTT
*
62066698 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
62066721 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
62066743 TATATATAT
1 TATATATAT
62066752 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:62068164 original size:13 final size:13
Alignment explanation
Indices: 62068146--62068175 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62068136 TCCAGCAACT
62068146 ATGAATTTATTTC
1 ATGAATTTATTTC
*
62068159 ATGAATTTATTTG
1 ATGAATTTATTTC
62068172 ATGA
1 ATGA
62068176 TGATCCGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:62068351 original size:50 final size:50
Alignment explanation
Indices: 62068270--62068367 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
62068260 ATTTGGGTAA
* *
62068270 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATG
* *
62068320 AGAGGTCTCATGTAAGACCATGTTTGAGACATGGCATTGGCACCGAGA
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGA
62068368 CCATGTCTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATG
Found at i:62068369 original size:31 final size:31
Alignment explanation
Indices: 62068334--62068398 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
62068324 GTCTCATGTA
*
62068334 AGACCATGTTTGAGACATGGCATTGGCACCG
1 AGACCATGTCTGAGACATGGCATTGGCACCG
*
62068365 AGACCATGTCTGAGACATGGCATTGGCATCG
1 AGACCATGTCTGAGACATGGCATTGGCACCG
62068396 AGA
1 AGA
62068399 TGAGAGGTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (31 bp):
AGACCATGTCTGAGACATGGCATTGGCACCG
Found at i:62068419 original size:81 final size:81
Alignment explanation
Indices: 62068284--62068448 Score: 269
Period size: 81 Copynumber: 2.0 Consensus size: 81
62068274 GTCCCATGTA
* * *
62068284 AGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCTCATGTAAGACCATGTTTGAGA
1 AGACCATGTCTGAGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTCTGAGA
62068349 CATGGCATTGGCACCG
66 CATGGCATTGGCACCG
*
62068365 AGACCATGTCTGAGACATGGCATTGGCA-TCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGG
1 AGACCATGTCTGAGACATGGCATTGGCACT-GAGATGAGAGGTCCCATGTAAGACCATGTCTGAG
*
62068429 ACATGGCATTGGCACTG
65 ACATGGCATTGGCACCG
62068446 AGA
1 AGA
62068449 TGAGAGGTCC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (81 bp):
AGACCATGTCTGAGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTCTGAGA
CATGGCATTGGCACCG
Found at i:62068424 original size:50 final size:50
Alignment explanation
Indices: 62068365--62068544 Score: 227
Period size: 50 Copynumber: 3.6 Consensus size: 50
62068355 ATTGGCACCG
*
62068365 AGACCATGTCTGAGACATGGCATTGGCATCGAGATGAGAGGTCCCATGTA
1 AGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATGTA
**
62068415 AGACCATGTCTGGGACATGGCATTGGCA-CTGAGATGAGAGGTCCCCCGTA
1 AGACCATGTCTGGGACATGGCATTGGCATC-GAGATGAGAGGTCCCATGTA
* * * * **
62068465 AGACCATCTCTGGGACATGGCATGGGCACCGACATGAGTACATCCCATGTA
1 AGACCATGTCTGGGACATGGCATTGGCATCGAGATGAG-AGGTCCCATGTA
* * *
62068516 AGACCATGTTTGGGATATGGCTTTGGCAT
1 AGACCATGTCTGGGACATGGCATTGGCAT
62068545 GTTATTATCA
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 78 0.70
51 32 0.29
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATGTA
Found at i:62074319 original size:82 final size:82
Alignment explanation
Indices: 62074137--62074319 Score: 217
Period size: 82 Copynumber: 2.2 Consensus size: 82
62074127 TACAATTCCG
* * * * *
62074137 AGATAATCC-TAGCAAACTTCATTTTACTTCAATAATACACGACAGAGTTTTAGAACAGATAGTC
1 AGATAATCCATGGCAGACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTC
* *
62074201 CTTATGGACATCCCACA
66 CCTATGAACATCCCACA
** * **
62074218 AGATAATCCATGGTGGACTTCTTTTTACTTTGATAATACACGACAGACTTCTAGAACAAATAGTC
1 AGATAATCCATGGCAGACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTC
*
62074283 CCTAT-AACCGTCCCACA
66 CCTATGAA-CATCCCACA
*
62074300 AGATAGTCCATGGCAGACTT
1 AGATAATCCATGGCAGACTT
62074320 TCCAGATATG
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
81 10 0.12
82 74 0.88
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (82 bp):
AGATAATCCATGGCAGACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTC
CCTATGAACATCCCACA
Found at i:62076279 original size:30 final size:32
Alignment explanation
Indices: 62076216--62076280 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
62076206 ATAAAAATGG
*
62076216 TGAAAATGGAGAAATGAGAAATCATTTGAAAA
1 TGAAAATAGAGAAATGAGAAATCATTTGAAAA
* *
62076248 TGAAAATAGAGAAAT-TGAAA-CATTTGGAAA
1 TGAAAATAGAGAAATGAGAAATCATTTGAAAA
62076278 TGA
1 TGA
62076281 TTATGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 12 0.40
31 4 0.13
32 14 0.47
ACGTcount: A:0.52, C:0.03, G:0.22, T:0.23
Consensus pattern (32 bp):
TGAAAATAGAGAAATGAGAAATCATTTGAAAA
Found at i:62076315 original size:63 final size:63
Alignment explanation
Indices: 62076242--62076373 Score: 194
Period size: 63 Copynumber: 2.1 Consensus size: 63
62076232 AGAAATCATT
* * *
62076242 TGAAAATGAAAATAGAGAAATTGAAA-CATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGAAAATAGAGAAA-TAAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAA
* * *
62076305 TGAAAATGAAAATGGAGAAATAAAATCATTTAGAAATTAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGAAAATAGAGAAATAAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAA
62076368 TGAAAA
1 TGAAAA
62076374 ATTAAAATGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
62 4 0.06
63 58 0.94
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (63 bp):
TGAAAATGAAAATAGAGAAATAAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:62078035 original size:38 final size:38
Alignment explanation
Indices: 62077993--62078069 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
62077983 AATTGATTTC
62077993 AAATAGTTTAGTGACTAAATAGAAAAAATTAAAAGCTT
1 AAATAGTTTAGTGACTAAATAGAAAAAATTAAAAGCTT
*
62078031 AAATAGTTTAGTGACTAAATCGAAAAAATTAAAAGCTT
1 AAATAGTTTAGTGACTAAATAGAAAAAATTAAAAGCTT
62078069 A
1 A
62078070 GTAACCAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (38 bp):
AAATAGTTTAGTGACTAAATAGAAAAAATTAAAAGCTT
Found at i:62087286 original size:19 final size:19
Alignment explanation
Indices: 62087264--62087326 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
62087254 GGCATGTAAG
62087264 GTGCATATTGGCACATAAA
1 GTGCATATTGGCACATAAA
* * *
62087283 GTGCATCTTGGCGCACAAA
1 GTGCATATTGGCACATAAA
* *
62087302 -TCGCATACTGGCACATGAA
1 GT-GCATATTGGCACATAAA
62087321 GTGCAT
1 GTGCAT
62087327 CCTAGAAAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 32 0.94
20 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (19 bp):
GTGCATATTGGCACATAAA
Found at i:62088122 original size:53 final size:53
Alignment explanation
Indices: 62088064--62088169 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
62088054 ATTTTTCATT
62088064 TTATTCAATTTATTCCTTAATGTGCGAAACTAATAATTAAACTTTACAATTTA
1 TTATTCAATTTATTCCTTAATGTGCGAAACTAATAATTAAACTTTACAATTTA
62088117 TTATTCAATTTATTCCTTAATGTGCGAAACTAATAATTAAACTTTACAATTTA
1 TTATTCAATTTATTCCTTAATGTGCGAAACTAATAATTAAACTTTACAATTTA
62088170 CTCATTTTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (53 bp):
TTATTCAATTTATTCCTTAATGTGCGAAACTAATAATTAAACTTTACAATTTA
Found at i:62090757 original size:62 final size:59
Alignment explanation
Indices: 62090677--62090902 Score: 227
Period size: 62 Copynumber: 3.7 Consensus size: 59
62090667 AAACAATGAA
* * * *
62090677 TTACATGGTCTGGACACACACCTGTGTCCCTGGCCGTGTGGCTTTGTACCCAACACAGTGAG
1 TTACACGGCCTGGGCACAC-CCTGTGTCCCTGGCCGTGTGG-TTTGTACCCAA-ACAGTAAG
* ** * * *
62090739 TTACACTGCCTGGGCACACGTTCGTGTCCCTGGCTGTGTGGTTTTGTACCAGAAATAGTAAG
1 TTACACGGCCTGGGCACACCCT-GTGTCCCTGGCCGTGTGG-TTTGTACC-CAAACAGTAAG
62090801 TTACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTCTTGTACCACAAACAGTAAG
1 TTACACGGCCTGGGCACAC-CCTGTGTCCCTGGCCGTGTGGT-TTGTACC-CAAACAGTAAG
* * * * *
62090863 TTACACGGCGTGAGCACACGCTCGTGTCTCTGGCAGTGTG
1 TTACACGGCCTGGGCACACCCT-GTGTCCCTGGCCGTGTG
62090903 AGCTCTGCAC
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
61 4 0.03
62 130 0.95
63 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (59 bp):
TTACACGGCCTGGGCACACCCTGTGTCCCTGGCCGTGTGGTTTGTACCCAAACAGTAAG
Found at i:62090902 original size:124 final size:124
Alignment explanation
Indices: 62090677--62090902 Score: 321
Period size: 124 Copynumber: 1.8 Consensus size: 124
62090667 AAACAATGAA
* * *
62090677 TTACATGGTCTGGACACACACCTGTGTCCCTGGCCGTGTGGCTTTGTACCCAACACAGTGAGTTA
1 TTACACGGCCTGGACACACACCTGTGTCCCTGGCCGTGTGGCTTTGTACCCAACACAGTAAGTTA
* * * *
62090742 CACTGCCTGGGCACACGTTCGTGTCCCTGGCTGTGTGGTTTTGTACCAGAAATAGTAAG
66 CACGGCCTGAGCACACGCTCGTGTCCCTGGCAGTGTGGTTTTGTACCAGAAATAGTAAG
* *
62090801 TTACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTGG-TCTTGTACCACAA-ACAGTAAGT
1 TTACACGGCCTGGACACACACCTGTGTCCCTGGCCGTGTGGCT-TTGTACC-CAACACAGTAAGT
* *
62090864 TACACGGCGTGAGCACACGCTCGTGTCTCTGGCAGTGTG
64 TACACGGCCTGAGCACACGCTCGTGTCCCTGGCAGTGTG
62090903 AGCTCTGCAC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
123 1 0.01
124 85 0.96
125 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (124 bp):
TTACACGGCCTGGACACACACCTGTGTCCCTGGCCGTGTGGCTTTGTACCCAACACAGTAAGTTA
CACGGCCTGAGCACACGCTCGTGTCCCTGGCAGTGTGGTTTTGTACCAGAAATAGTAAG
Done.