Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 66 of 82
Found at i:23794918 original size:30 final size:30
Alignment explanation
Indices: 23794875--23794957 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
23794865 TTGTGGAGGG
* *
23794875 GAAGCAGCTCTAGGAGAAGCAGCCCTCGGA
1 GAAGCAACCCTAGGAGAAGCAGCCCTCGGA
* ** *
23794905 GAAGCAACCCTAGGAGAGGCAATCCTCTGA
1 GAAGCAACCCTAGGAGAAGCAGCCCTCGGA
* *
23794935 GAGGGAACCCGT-GGAGAAGCAGC
1 GAAGCAACCC-TAGGAGAAGCAGC
23794958 TCTATGAGGC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.34, T:0.10
Consensus pattern (30 bp):
GAAGCAACCCTAGGAGAAGCAGCCCTCGGA
Found at i:23794926 original size:15 final size:15
Alignment explanation
Indices: 23794884--23794926 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
23794874 GGAAGCAGCT
*
23794884 CTAGGAGAAGCAGCC
1 CTAGGAGAAGCAACC
*
23794899 CTCGGAGAAGCAACC
1 CTAGGAGAAGCAACC
*
23794914 CTAGGAGAGGCAA
1 CTAGGAGAAGCAA
23794927 TCCTCTGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.35, C:0.26, G:0.33, T:0.07
Consensus pattern (15 bp):
CTAGGAGAAGCAACC
Found at i:23797947 original size:3 final size:3
Alignment explanation
Indices: 23797934--23797969 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
23797924 TTCAGTTTTC
*
23797934 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23797970 TTTCTCTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:23800347 original size:2 final size:2
Alignment explanation
Indices: 23800340--23800383 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
23800330 AAACAGATAA
23800340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23800382 AT
1 AT
23800384 TACAAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23801744 original size:26 final size:25
Alignment explanation
Indices: 23801706--23801757 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
23801696 ATTTAAATAA
23801706 ATTTTTTTATTATGTTTA-ATTAAAT
1 ATTTTTTTATTAT-TTTAGATTAAAT
*
23801731 ATTTTTATTTTTATTTTAGATTAAAT
1 ATTTTT-TTATTATTTTAGATTAAAT
23801757 A
1 A
23801758 AGTATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
ATTTTTTTATTATTTTAGATTAAAT
Found at i:23809594 original size:20 final size:20
Alignment explanation
Indices: 23809557--23809595 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23809547 TTTAACAATT
* * *
23809557 AACATGTGATTGTGTTTTTC
1 AACATGTCAGTGTATTTTTC
23809577 AACATGTCAGTGTATTTTT
1 AACATGTCAGTGTATTTTT
23809596 ATCACACCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (20 bp):
AACATGTCAGTGTATTTTTC
Found at i:23810989 original size:18 final size:20
Alignment explanation
Indices: 23810966--23811018 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
23810956 TGACAATTAT
23810966 TTTCTTAAT-A-ACTTCACA
1 TTTCTTAATAAGACTTCACA
23810984 TTTCTTAAATAAGTACTTCACA
1 TTTCTT-AATAAG-ACTTCACA
23811006 TTTCTTAAATAAG
1 TTTCTT-AATAAG
23811019 TATCTTCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.19
19 3 0.10
20 1 0.03
22 21 0.68
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (20 bp):
TTTCTTAATAAGACTTCACA
Found at i:23811004 original size:22 final size:22
Alignment explanation
Indices: 23810976--23811025 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 22
23810966 TTTCTTAATA
23810976 ACTTCACATTTCTTAAATAAGT
1 ACTTCACATTTCTTAAATAAGT
23810998 ACTTCACATTTCTTAAATAAGT
1 ACTTCACATTTCTTAAATAAGT
23811020 ATCTTC
1 A-CTTC
23811026 TCCAAGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (22 bp):
ACTTCACATTTCTTAAATAAGT
Found at i:23813596 original size:29 final size:29
Alignment explanation
Indices: 23813563--23813622 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
23813553 AAATTATTTA
*
23813563 ATAAAATTGAAAT-AAATCTTTATATTTTT
1 ATAAAATT-AAATCAAATATTTATATTTTT
* * *
23813592 ATAAACTTCAATCAAATATTTTTATTTTT
1 ATAAAATTAAATCAAATATTTATATTTTT
23813621 AT
1 AT
23813623 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.50
Consensus pattern (29 bp):
ATAAAATTAAATCAAATATTTATATTTTT
Found at i:23813742 original size:33 final size:33
Alignment explanation
Indices: 23813705--23813767 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
23813695 TGATGCTATC
* * * *
23813705 GTGATATGTTGACATGTCATAATTGATGATTAT
1 GTGATATATTAACATATCATAATTAATGATTAT
23813738 GTGATATATTAACATATCATAATTAATGAT
1 GTGATATATTAACATATCATAATTAATGAT
23813768 GACGTAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (33 bp):
GTGATATATTAACATATCATAATTAATGATTAT
Found at i:23813780 original size:33 final size:33
Alignment explanation
Indices: 23813716--23813782 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
23813706 TGATATGTTG
* * * * * *
23813716 ACATGTCATAATTGATGATTATGTGATATATTA
1 ACATATCATAATTAATGATGACGTAACATATTA
23813749 ACATATCATAATTAATGATGACGTAACATATTA
1 ACATATCATAATTAATGATGACGTAACATATTA
23813782 A
1 A
23813783 TTTAATATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (33 bp):
ACATATCATAATTAATGATGACGTAACATATTA
Found at i:23813792 original size:23 final size:24
Alignment explanation
Indices: 23813747--23813792 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
23813737 TGTGATATAT
23813747 TAACATATCATAATTAATGATGACG
1 TAACATAT-ATAATTAATGATGACG
23813772 TAACATAT-TAATTTAAT-ATGA
1 TAACATATATAA-TTAATGATGA
23813793 TAATATAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (24 bp):
TAACATATATAATTAATGATGACG
Found at i:23833242 original size:25 final size:23
Alignment explanation
Indices: 23833197--23833248 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
23833187 AAAATTCATA
**
23833197 TAAATCTTTTTTTTAGTTTCAAT
1 TAAATCTTTTTTTTACATTCAAT
23833220 TAAACTCTTTTTTATTACATTCAAT
1 TAAA-TCTTTTTT-TTACATTCAAT
23833245 TAAA
1 TAAA
23833249 ATTCATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 8 0.32
25 13 0.52
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.54
Consensus pattern (23 bp):
TAAATCTTTTTTTTACATTCAAT
Found at i:23834569 original size:18 final size:18
Alignment explanation
Indices: 23834546--23834581 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23834536 GATAGAGGAG
23834546 CAAATATGATATTTTCGC
1 CAAATATGATATTTTCGC
23834564 CAAATATGATATTTTCGC
1 CAAATATGATATTTTCGC
23834582 TGCTGTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
CAAATATGATATTTTCGC
Found at i:23846040 original size:17 final size:18
Alignment explanation
Indices: 23846008--23846041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23845998 CTACAAATTG
*
23846008 AAAAAATAAGAGAGAAAA
1 AAAAAAAAAGAGAGAAAA
23846026 AAAAAAAAAGA-AGAAA
1 AAAAAAAAAGAGAGAAA
23846042 GACAACATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGAGAGAAAA
Found at i:23849803 original size:51 final size:51
Alignment explanation
Indices: 23849743--23849849 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
23849733 TTTAACCTTT
* *
23849743 AAATTTATATATTATGATGCATAATCTCTT-AGAAAGTATAAG-TCATTAAAA
1 AAATTTATATATTAAGATACATAATCTCTTAAG-AAGTATAAGCT-ATTAAAA
23849794 AAATTTATATATTAAGATACATAATCTCTTAAGAAGTATAAGCTATTAAAA
1 AAATTTATATATTAAGATACATAATCTCTTAAGAAGTATAAGCTATTAAAA
*
23849845 TAATT
1 AAATT
23849850 CTAATAAGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
51 48 0.94
52 3 0.06
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (51 bp):
AAATTTATATATTAAGATACATAATCTCTTAAGAAGTATAAGCTATTAAAA
Found at i:23863559 original size:2 final size:2
Alignment explanation
Indices: 23863554--23863584 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23863544 ATATCAAAAT
23863554 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23863585 AAAATAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23865289 original size:21 final size:21
Alignment explanation
Indices: 23865263--23865302 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23865253 TACAAAATAA
*
23865263 AAAGTAAATATATTTATATTT
1 AAAGTAAATATATATATATTT
*
23865284 AAAGTACATATATATATAT
1 AAAGTAAATATATATATAT
23865303 ATACACACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
AAAGTAAATATATATATATTT
Found at i:23865550 original size:2 final size:2
Alignment explanation
Indices: 23865543--23865593 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
23865533 GTCCTACTTA
23865543 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23865585 AT AT AT AT A
1 AT AT AT AT A
23865594 ATTCAATTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23874863 original size:2 final size:2
Alignment explanation
Indices: 23874858--23874882 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23874848 ACCCCCCAAG
23874858 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
23874883 ACATGAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:23895664 original size:20 final size:20
Alignment explanation
Indices: 23895621--23895666 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
23895611 GCGTTTTTAT
* *
23895621 TTTTAAATATAATAATAATT
1 TTTTAAATATAATAAAAATA
23895641 TTTTAAAT-TAATAAAAAATA
1 TTTTAAATATAAT-AAAAATA
23895661 TTTTAA
1 TTTTAA
23895667 TTTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTAAATATAATAAAAATA
Found at i:23898816 original size:70 final size:66
Alignment explanation
Indices: 23898692--23898830 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 66
23898682 CAGTGACGAA
*
23898692 GAGGGAGAGAAAGGGAGAAATAGGCTACGGTAACTGGTGATGAAAATGGAGAGAGAGAGAG-GAG
1 GAGGGAGAGAAAGGGAGAAATAGGCTACGGTAACTGGTGATGAAAATAGAGAGAGAGAGAGAGAG
23898756 G
66 G
23898757 GANGGGAGGAGAAAGGGAAGGAAATAAGGCTACGGTAACTAGGTGGATG-AAATAG-GAGAGAGA
1 GA-GGGA-GAGAAAGGG-A-GAAAT-AGGCTACGGTAACT-GGT-GATGAAAATAGAGAGAGAGA
23898820 GAGAGAGG
59 GAGAGAGG
23898828 GAG
1 GAG
23898831 AAAGTGACTT
Statistics
Matches: 65, Mismatches: 1, Indels: 11
0.84 0.01 0.14
Matches are distributed among these distances:
65 2 0.03
66 4 0.06
67 9 0.14
68 1 0.02
69 5 0.08
70 26 0.40
71 14 0.22
72 4 0.06
ACGTcount: A:0.40, C:0.04, G:0.45, T:0.10
Consensus pattern (66 bp):
GAGGGAGAGAAAGGGAGAAATAGGCTACGGTAACTGGTGATGAAAATAGAGAGAGAGAGAGAGAG
G
Found at i:23906564 original size:4 final size:4
Alignment explanation
Indices: 23906541--23906589 Score: 71
Period size: 4 Copynumber: 12.2 Consensus size: 4
23906531 TCATCTTCCA
* * *
23906541 TATG TATA TATA TATT TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23906589 T
1 T
23906590 TACTTTGTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:23918433 original size:2 final size:2
Alignment explanation
Indices: 23918428--23918463 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23918418 ACACAGAAGC
23918428 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
23918464 ACCTTGATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23925502 original size:16 final size:16
Alignment explanation
Indices: 23925463--23925505 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
23925453 TATTTTTATT
*
23925463 TTAAATAAATAAATTA
1 TTAAATTAATAAATTA
23925479 TTATAATTAAT-AATTAA
1 TTA-AATTAATAAATT-A
23925496 TTAAATTAAT
1 TTAAATTAAT
23925506 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATTAATAAATTA
Found at i:23925628 original size:24 final size:22
Alignment explanation
Indices: 23925592--23925638 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
23925582 TAACATGACA
*
23925592 TAATATGTGATTATATGATTATAT
1 TAATATCTGATTA-AT-ATTATAT
*
23925616 TAATATCTTATTAATATTATAT
1 TAATATCTGATTAATATTATAT
23925638 T
1 T
23925639 GTACAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
TAATATCTGATTAATATTATAT
Found at i:23928833 original size:59 final size:59
Alignment explanation
Indices: 23928741--23928852 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
23928731 TACCTGCAAT
*
23928741 ATTAAAATTAATGCGATATTGGTCCAGTTACCATATTCCATAGCATCTACTATTCCAAC
1 ATTAAAATTAATGCGATATTGGTCCAATTACCATATTCCATAGCATCTACTATTCCAAC
* * *
23928800 ATTAAAATTAATGTGATGTTGGTCCAATTACCATATTCCATATCATCTACTAT
1 ATTAAAATTAATGCGATATTGGTCCAATTACCATATTCCATAGCATCTACTAT
23928853 AATGCATGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (59 bp):
ATTAAAATTAATGCGATATTGGTCCAATTACCATATTCCATAGCATCTACTATTCCAAC
Found at i:23932074 original size:37 final size:37
Alignment explanation
Indices: 23932033--23932109 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
23932023 ACTATAAAAA
*
23932033 TATCAATATTTATCAATTGTGTAAAACATTCAAAACT
1 TATCAATATTTATCAATTGTGTAAAACATCCAAAACT
23932070 TATCAATATTTATCAATTGTGTAAAACATCCAAAACT
1 TATCAATATTTATCAATTGTGTAAAACATCCAAAACT
23932107 TAT
1 TAT
23932110 AATTATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (37 bp):
TATCAATATTTATCAATTGTGTAAAACATCCAAAACT
Found at i:23932955 original size:22 final size:22
Alignment explanation
Indices: 23932929--23932977 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
23932919 AGAGATGTAT
23932929 AAAAGAAAACTTTTGATTTTAA
1 AAAAGAAAACTTTTGATTTTAA
**
23932951 AAAAGTCAACTTTTGATTTTAA
1 AAAAGAAAACTTTTGATTTTAA
23932973 AAAAG
1 AAAAG
23932978 TAGTCCTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (22 bp):
AAAAGAAAACTTTTGATTTTAA
Found at i:23932978 original size:22 final size:22
Alignment explanation
Indices: 23932936--23932978 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23932926 TATAAAAGAA
23932936 AACTTTTGATTTTAAAAAAGTC
1 AACTTTTGATTTTAAAAAAGTC
23932958 AACTTTTGATTTTAAAAAAGT
1 AACTTTTGATTTTAAAAAAGT
23932979 AGTCCTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
AACTTTTGATTTTAAAAAAGTC
Found at i:23935588 original size:2 final size:2
Alignment explanation
Indices: 23935583--23935611 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23935573 ATATATATAT
23935583 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23935612 TAGGCATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23946635 original size:35 final size:35
Alignment explanation
Indices: 23946590--23946720 Score: 119
Period size: 35 Copynumber: 3.8 Consensus size: 35
23946580 GTTAATTTTG
* *
23946590 GGTTTTGGTTGATTCTGGGAAAAGCCATTGTTAAA
1 GGTTGTGGTTGATTCTGTGAAAAGCCATTGTTAAA
* *
23946625 GGTTGTGGTTGA-GCTTGTGAAAAGCCATT-TT--G
1 GGTTGTGGTTGATTC-TGTGAAAAGCCATTGTTAAA
* * * *
23946657 GGTTTTGGTTGATTCCGTAAAAAACCATTGTTAAA
1 GGTTGTGGTTGATTCTGTGAAAAGCCATTGTTAAA
* *
23946692 GGTTGTGGCTGA-GCTTGTGAAAAGCCATT
1 GGTTGTGGTTGATTC-TGTGAAAAGCCATT
23946721 ATAAAAACTT
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
32 22 0.30
33 3 0.04
34 4 0.05
35 45 0.61
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (35 bp):
GGTTGTGGTTGATTCTGTGAAAAGCCATTGTTAAA
Found at i:23946666 original size:67 final size:67
Alignment explanation
Indices: 23946584--23946720 Score: 229
Period size: 67 Copynumber: 2.0 Consensus size: 67
23946574 AGAAAAGTTA
* * * *
23946584 ATTTTGGGTTTTGGTTGATTCTGGGAAAAGCCATTGTTAAAGGTTGTGGTTGAGCTTGTGAAAAG
1 ATTTTGGGTTTTGGTTGATTCCGGAAAAAACCATTGTTAAAGGTTGTGGCTGAGCTTGTGAAAAG
23946649 CC
66 CC
*
23946651 ATTTTGGGTTTTGGTTGATTCCGTAAAAAACCATTGTTAAAGGTTGTGGCTGAGCTTGTGAAAAG
1 ATTTTGGGTTTTGGTTGATTCCGGAAAAAACCATTGTTAAAGGTTGTGGCTGAGCTTGTGAAAAG
23946716 CC
66 CC
23946718 ATT
1 ATT
23946721 ATAAAAACTT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.37
Consensus pattern (67 bp):
ATTTTGGGTTTTGGTTGATTCCGGAAAAAACCATTGTTAAAGGTTGTGGCTGAGCTTGTGAAAAG
CC
Found at i:23948481 original size:18 final size:18
Alignment explanation
Indices: 23948460--23948499 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
23948450 GTAAGAGTGA
23948460 TGAGCTATAGTTAAATAC
1 TGAGCTATAGTTAAATAC
23948478 TGAGCTATAGTTAAATAC
1 TGAGCTATAGTTAAATAC
23948496 TGAG
1 TGAG
23948500 TGATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (18 bp):
TGAGCTATAGTTAAATAC
Found at i:23957900 original size:2 final size:2
Alignment explanation
Indices: 23957893--23957949 Score: 70
Period size: 2 Copynumber: 31.0 Consensus size: 2
23957883 CCTTTTGCCC
*
23957893 CT CT CT CT CT CT CT CN CT C- CT -T CT -T C- CT C- CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23957930 CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT
23957950 TCTTTTTTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
1 5 0.10
2 43 0.90
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:23961634 original size:28 final size:24
Alignment explanation
Indices: 23961580--23961642 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 24
23961570 TTTCCAATTA
23961580 TTTTCTTTTCTTTTTTTTTTTTCG
1 TTTTCTTTTCTTTTTTTTTTTTCG
*
23961604 TTTTCGTTTTCTTCTTTTTTTCTTCTGG
1 TTTTC-TTTTCTT-TTTTTTT-TT-TCG
23961632 TTTCTCTTTTC
1 TTT-TCTTTTC
23961643 CTTAAAAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.15
25 7 0.21
26 7 0.21
27 2 0.06
28 10 0.30
29 2 0.06
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTCTTTTCTTTTTTTTTTTTCG
Found at i:23991299 original size:35 final size:35
Alignment explanation
Indices: 23991235--23991311 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
23991225 TATTATACAG
* * *
23991235 AGAACAACCAGAATAAGTGAAGTGTTACTTCACGC
1 AGAACAACCAGAACAAGTGAAGCGCTACTTCACGC
* * *
23991270 AGAATAACTAGAACAAGTGAAGCGCTACTTCACTC
1 AGAACAACCAGAACAAGTGAAGCGCTACTTCACGC
23991305 AGAACAA
1 AGAACAA
23991312 GTGAAGCGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (35 bp):
AGAACAACCAGAACAAGTGAAGCGCTACTTCACGC
Found at i:23991640 original size:29 final size:28
Alignment explanation
Indices: 23991607--23991680 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 28
23991597 CTCGTATACT
23991607 TATTCATGTACAGCTTAC-TCTCTTGTACC
1 TATTC-TGTACA-CTTACTTCTCTTGTACC
*
23991636 TATTCTCGTACAACTT-CTTTTCTTGTACC
1 TATTCT-GTAC-ACTTACTTCTCTTGTACC
23991665 TATTCTTGTACACTTA
1 TATTC-TGTACACTTA
23991681 TTTTCTATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 6 0.15
29 31 0.79
30 2 0.05
ACGTcount: A:0.20, C:0.26, G:0.08, T:0.46
Consensus pattern (28 bp):
TATTCTGTACACTTACTTCTCTTGTACC
Found at i:23991693 original size:28 final size:29
Alignment explanation
Indices: 23991627--23991686 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
23991617 CAGCTTACTC
*
23991627 TCTTGTACCTATTCTCGTACAACTTCTTT
1 TCTTGTACCTATTCTCGTACAACTTATTT
*
23991656 TCTTGTACCTATTCTTGTAC-ACTTATTT
1 TCTTGTACCTATTCTCGTACAACTTATTT
23991684 TCT
1 TCT
23991687 ATTACCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.17, C:0.25, G:0.07, T:0.52
Consensus pattern (29 bp):
TCTTGTACCTATTCTCGTACAACTTATTT
Found at i:23998058 original size:10 final size:9
Alignment explanation
Indices: 23998034--23998058 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23998024 GTTTTCTTAT
23998034 TCTTTTTCA
1 TCTTTTTCA
23998043 TCTTTTTCA
1 TCTTTTTCA
23998052 TCTTTTT
1 TCTTTTT
23998059 AATAAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (9 bp):
TCTTTTTCA
Found at i:24003661 original size:64 final size:63
Alignment explanation
Indices: 24003528--24003708 Score: 263
Period size: 64 Copynumber: 2.9 Consensus size: 63
24003518 ATCCATAACC
* * ** * *
24003528 ATCTTTTCGATGGATTTGACTATACTTTTTTAATAGAAAAGTACAAAAATGAAATACATAACT
1 ATCTCTTCGATGGATCTGACTATACTTTCCTAATAGAAAAGTACAAAAATGGAATACAGAACT
* *
24003591 ATCTCTTCGATGGATCTGACTATACTTTCCTAATAAAAAAAATACAAAAATGGAATACAGAACT
1 ATCTCTTCGATGGATCTGACTATACTTTCCTAAT-AGAAAAGTACAAAAATGGAATACAGAACT
* *
24003655 ATCTCTTCAATGCATCTGACTATACTTTCCTAATAGAAAAGTACAAAAATGGAA
1 ATCTCTTCGATGGATCTGACTATACTTTCCTAATAGAAAAGTACAAAAATGGAA
24003709 CATTATTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 48 0.46
64 57 0.54
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (63 bp):
ATCTCTTCGATGGATCTGACTATACTTTCCTAATAGAAAAGTACAAAAATGGAATACAGAACT
Found at i:24005931 original size:29 final size:29
Alignment explanation
Indices: 24005892--24005947 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
24005882 TTGCTCTTCT
*
24005892 TTAACTTTAATAAAAAAGATATCATTTTC
1 TTAACTTTAATAAAAAAAATATCATTTTC
* *
24005921 TTAATTTTAATAAAAAAAATCTCATTT
1 TTAACTTTAATAAAAAAAATATCATTT
24005948 AAATATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAACTTTAATAAAAAAAATATCATTTTC
Found at i:24007866 original size:25 final size:25
Alignment explanation
Indices: 24007838--24007888 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24007828 CCGTCAGCCA
24007838 TACATTGAAACTTTGATTGTTTGAT
1 TACATTGAAACTTTGATTGTTTGAT
24007863 TACATTGAAACTTTGATTGTTTGAT
1 TACATTGAAACTTTGATTGTTTGAT
24007888 T
1 T
24007889 GCTCATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (25 bp):
TACATTGAAACTTTGATTGTTTGAT
Found at i:24015496 original size:34 final size:33
Alignment explanation
Indices: 24015403--24015506 Score: 95
Period size: 32 Copynumber: 3.1 Consensus size: 33
24015393 TGATCTTATG
* * *
24015403 AAAAAGCATTATGAGGGTTTTGCTTAATC-CTGT
1 AAAAAGCATTGTGAGGGTTTTACTTGATCTC-GT
* * *
24015436 -AAAAGCATTGTAAGAGTTTCACTTGATCTCGT
1 AAAAAGCATTGTGAGGGTTTTACTTGATCTCGT
* *
24015468 AAAAAGCTATTGTGAGGGTTTTATTTGATTCTCAT
1 AAAAAGC-ATTGTGAGGGTTTTACTTGA-TCTCGT
24015503 AAAA
1 AAAA
24015507 GCTCATTTCC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
32 24 0.43
33 7 0.12
34 16 0.29
35 9 0.16
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (33 bp):
AAAAAGCATTGTGAGGGTTTTACTTGATCTCGT
Found at i:24015507 original size:34 final size:33
Alignment explanation
Indices: 24015435--24015509 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
24015425 CTTAATCCTG
*
24015435 TAAAAGC-ATTGTAAGAGTTTCACTTGATCTCG
1 TAAAAGCTATTGTAAGAGTTTCACTTGATCTCA
* * * *
24015467 TAAAAAGCTATTGTGAGGGTTTTATTTGATTCTCA
1 T-AAAAGCTATTGTAAGAGTTTCACTTGA-TCTCA
24015502 TAAAAGCT
1 TAAAAGCT
24015510 CATTTCCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 1 0.03
33 6 0.17
34 23 0.66
35 5 0.14
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (33 bp):
TAAAAGCTATTGTAAGAGTTTCACTTGATCTCA
Found at i:24015681 original size:48 final size:49
Alignment explanation
Indices: 24015628--24015728 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 49
24015618 CAGCAATGTG
* *
24015628 ATTTA-TTGATTGCATTTAGCTGAGGAAAATATTTTACCTTGATTTATT
1 ATTTACTTGATTGCATTTAGATGACGAAAATATTTTACCTTGATTTATT
* * *
24015676 ATTTATGCCTTGCTTGCATTTGGATTACGAAAATATTTTACCTTGATTTATT
1 ATTTA---CTTGATTGCATTTAGATGACGAAAATATTTTACCTTGATTTATT
24015728 A
1 A
24015729 CTTGTTTAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 5 0.11
52 39 0.89
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.48
Consensus pattern (49 bp):
ATTTACTTGATTGCATTTAGATGACGAAAATATTTTACCTTGATTTATT
Found at i:24018600 original size:2 final size:2
Alignment explanation
Indices: 24018593--24018647 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
24018583 AATGGAATTN
24018593 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24018634 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
24018648 TTTATTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24025870 original size:4 final size:4
Alignment explanation
Indices: 24025861--24025893 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
24025851 AGCTTTGGTC
24025861 TAAA TAAA TAAA TAAA TAAA TAAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA
24025894 AGAATAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:24025878 original size:12 final size:13
Alignment explanation
Indices: 24025861--24025893 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
24025851 AGCTTTGGTC
24025861 TAAATAAAT-AAA
1 TAAATAAATAAAA
24025873 TAAATAAATAAAA
1 TAAATAAATAAAA
24025886 TAAATAAA
1 TAAATAAA
24025894 AGAATAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:24025900 original size:17 final size:17
Alignment explanation
Indices: 24025861--24025893 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24025851 AGCTTTGGTC
24025861 TAAAT-AAATAAATAAA
1 TAAATAAAATAAATAAA
24025877 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
24025894 AGAATAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAAATAAATAAA
Found at i:24028317 original size:4 final size:4
Alignment explanation
Indices: 24028308--24028359 Score: 50
Period size: 4 Copynumber: 12.0 Consensus size: 4
24028298 TGTAGACACC
* *
24028308 TAAA TAAA TAAA AAAA TTAAT TAAA TTAAA TTAAA TTAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA -TAAA TAAA -TAAA -TAAA -TAAA TAAA TAAA
24028356 TAAA
1 TAAA
24028360 ATAATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 26 0.62
5 16 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
TAAA
Found at i:24028374 original size:4 final size:5
Alignment explanation
Indices: 24028321--24028361 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
24028311 ATAAATAAAA
*
24028321 AAATT -AATT AAATT AAATT AAATT AAA-T AAA-T AAATA AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAAT
24028362 AATAATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
4 12 0.36
5 21 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
AAATT
Found at i:24029433 original size:26 final size:27
Alignment explanation
Indices: 24029404--24029476 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 27
24029394 TGTAGACACC
*
24029404 TAAAATAAATAAAAAAATAATTAAAT-
1 TAAAATAAATAAAAAAATAATAAAATA
* *
24029430 TAAATTAAATTAAATAAATAATAAAATAA
1 TAAAATAAA-TAAAAAAATAATAAAAT-A
*
24029459 TAATAATTAATAAAAAAA
1 TAA-AATAAATAAAAAAA
24029477 ATGGGTACGC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 8 0.22
27 15 0.41
29 10 0.27
30 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (27 bp):
TAAAATAAATAAAAAAATAATAAAATA
Found at i:24032067 original size:25 final size:25
Alignment explanation
Indices: 24032039--24032089 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24032029 CCGTCAGCCA
24032039 TACATTGAAACTTTGATTGTTTGAT
1 TACATTGAAACTTTGATTGTTTGAT
24032064 TACATTGAAACTTTGATTGTTTGAT
1 TACATTGAAACTTTGATTGTTTGAT
24032089 T
1 T
24032090 GCTCATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (25 bp):
TACATTGAAACTTTGATTGTTTGAT
Found at i:24032305 original size:25 final size:25
Alignment explanation
Indices: 24032277--24032327 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24032267 CCGTCAGCCA
24032277 TACATTGAAACTTTGATTGTTTGAT
1 TACATTGAAACTTTGATTGTTTGAT
24032302 TACATTGAAACTTTGATTGTTTGAT
1 TACATTGAAACTTTGATTGTTTGAT
24032327 T
1 T
24032328 GCTCATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (25 bp):
TACATTGAAACTTTGATTGTTTGAT
Found at i:24032316 original size:238 final size:237
Alignment explanation
Indices: 24031898--24032372 Score: 923
Period size: 238 Copynumber: 2.0 Consensus size: 237
24031888 GCCTTGAGCA
24031898 TGAAGTATATATAAACACGATATCTACCTTTGTATTATGATCCATCACTACATCCAGCTTACTAT
1 TGAAGTATATATAAACACGATATCTACCTTTGTATTATGATCCATCACTACATCCAGCTTACTAT
24031963 ACCATGGCAGCACGTTTGGCTATACTTGTCCTTGTGTTGACTTCTCTTCTCGTGCTCCATGAATG
66 ACCATGGCAGCACGTTTGGCTATACTTGTCCTTGTGTTGACTTCTCTTCTCGTGCTCCATGAATG
24032028 TCCGTCAGCCATACATTGAAACTTTGATTGTTTGATTACATTGAAACTTTGATTGTTTGATTGCT
131 TCCGTCAGCCATACATTGAAACTTTGATTGTTTGATTACATTGAAACTTTGATTGTTTGATTGCT
*
24032093 CATTTACTCTTGAAACTTATGCTTTTTTTTTTTTTTGACATG
196 CATTTACCCTTGAAACTTATGCTTTTTTTTTTTTTTGACATG
24032135 NTGAAGTATATATAAACACGATATCTACCTTTGTATTATGATCCATCACTACATCCAGCTTACTA
1 -TGAAGTATATATAAACACGATATCTACCTTTGTATTATGATCCATCACTACATCCAGCTTACTA
24032200 TACCATGGCAGCACGTTTGGCTATACTTGTCCTTGTGTTGACTTCTCTTCTCGTGCTCCATGAAT
65 TACCATGGCAGCACGTTTGGCTATACTTGTCCTTGTGTTGACTTCTCTTCTCGTGCTCCATGAAT
24032265 GTCCGTCAGCCATACATTGAAACTTTGATTGTTTGATTACATTGAAACTTTGATTGTTTGATTGC
130 GTCCGTCAGCCATACATTGAAACTTTGATTGTTTGATTACATTGAAACTTTGATTGTTTGATTGC
*
24032330 TCATTTACCCTTGACACTTATGCTTTTTTTTTTTTTTGACATG
195 TCATTTACCCTTGAAACTTATGCTTTTTTTTTTTTTTGACATG
24032373 AAACAGGTAG
Statistics
Matches: 235, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 235 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.41
Consensus pattern (237 bp):
TGAAGTATATATAAACACGATATCTACCTTTGTATTATGATCCATCACTACATCCAGCTTACTAT
ACCATGGCAGCACGTTTGGCTATACTTGTCCTTGTGTTGACTTCTCTTCTCGTGCTCCATGAATG
TCCGTCAGCCATACATTGAAACTTTGATTGTTTGATTACATTGAAACTTTGATTGTTTGATTGCT
CATTTACCCTTGAAACTTATGCTTTTTTTTTTTTTTGACATG
Found at i:24041553 original size:4 final size:4
Alignment explanation
Indices: 24041544--24041572 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
24041534 GGAAGGTTTT
24041544 TGGA TGGA TGGA TGGA TGGA TGGA TGGA T
1 TGGA TGGA TGGA TGGA TGGA TGGA TGGA T
24041573 TCCTGTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.48, T:0.28
Consensus pattern (4 bp):
TGGA
Found at i:24041668 original size:48 final size:48
Alignment explanation
Indices: 24041597--24041694 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
24041587 GAAAATAAGA
*
24041597 TAGGTTATGATGCAGTAAGCTATGAAGACACTGATACTATTATTTATC
1 TAGGTTATAATGCAGTAAGCTATGAAGACACTGATACTATTATTTATC
* **
24041645 TAGGTTATAATGTAGTAAGCTATGAAGACACTGATGTTATTATTTATC
1 TAGGTTATAATGCAGTAAGCTATGAAGACACTGATACTATTATTTATC
24041693 TA
1 TA
24041695 TTACATAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (48 bp):
TAGGTTATAATGCAGTAAGCTATGAAGACACTGATACTATTATTTATC
Found at i:24045600 original size:15 final size:15
Alignment explanation
Indices: 24045555--24045609 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
24045545 ATTTTTAAAT
24045555 ATTAATAATTT-ATA
1 ATTAATAATTTAATA
24045569 ATTAATTAAAATATTAATA
1 ATTAA-T--AAT-TTAATA
24045588 ATTAATAATTTAA-A
1 ATTAATAATTTAATA
24045602 TATTAATA
1 -ATTAATA
24045610 TTGTAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.17
15 12 0.34
16 3 0.09
17 3 0.09
18 3 0.09
19 8 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAATAATTTAATA
Found at i:24045633 original size:25 final size:27
Alignment explanation
Indices: 24045552--24045636 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 27
24045542 TTTATTTTTA
24045552 AATATTAATAATTTATAA-TTAATTAA-
1 AATATTAATAA-TTATAATTTAATTAAT
* *
24045578 AATATTAATAATTAATAATTTAAATATT
1 AATATTAATAATT-ATAATTTAATTAAT
*
24045606 AATATT-GTAA-TATAATTTAATTAAT
1 AATATTAATAATTATAATTTAATTAAT
24045631 AATATT
1 AATATT
24045637 TTTATTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
25 20 0.39
26 16 0.31
27 9 0.18
28 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
AATATTAATAATTATAATTTAATTAAT
Found at i:24045657 original size:39 final size:39
Alignment explanation
Indices: 24045578--24045690 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 39
24045568 AATTAATTAA
* * *
24045578 AATATTAA--TAATTAATAAT-TTAA-ATATTAATATTGT
1 AATATTAATTTAATTAA-AATATTAATATTTTTATATTTT
**
24045614 AATA-TAATTTAATTAATAATATTTTTATTTTTATATTTT
1 AATATTAATTTAATTAA-AATATTAATATTTTTATATTTT
*
24045653 AATATTATTTTAATTAAAATATTAATATTTTT-TATTTT
1 AATATTAATTTAATTAAAATATTAATATTTTTATATTTT
24045691 TATTTATACT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
35 3 0.05
36 4 0.06
37 11 0.17
38 8 0.12
39 27 0.42
40 11 0.17
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (39 bp):
AATATTAATTTAATTAAAATATTAATATTTTTATATTTT
Found at i:24045721 original size:16 final size:16
Alignment explanation
Indices: 24045702--24045762 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
24045692 ATTTATACTC
*
24045702 ATTAAAATTTTAATAT
1 ATTAAAATATTAATAT
*
24045718 ATTAATAAT-TTAATAC
1 ATTAA-AATATTAATAT
*
24045734 A-TAAAACATTAATAGT
1 ATTAAAATATTAATA-T
24045750 -TTAAAATATTAAT
1 ATTAAAATATTAAT
24045763 TTTTTTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.05
15 9 0.24
16 23 0.62
17 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTAAAATATTAATAT
Found at i:24045803 original size:26 final size:26
Alignment explanation
Indices: 24045770--24045830 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
24045760 AATTTTTTTT
*
24045770 TAATATTTTAATCATAT-TAATATTAA
1 TAATATTTTAATCATATATAA-AATAA
* *
24045796 TAATATTTAAATCATATATAAAATAT
1 TAATATTTTAATCATATATAAAATAA
24045822 TAATATTTT
1 TAATATTTT
24045831 TAAAATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATTTTAATCATATATAAAATAA
Found at i:24045841 original size:26 final size:28
Alignment explanation
Indices: 24045788--24045843 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
24045778 TAATCATATT
24045788 AATATTAATAATATTTAAATCATATATAA
1 AATATTAATAATATTTAAA-CATATATAA
* *
24045817 AATATTAAT-ATTTTTAAA-ATTTATAA
1 AATATTAATAATATTTAAACATATATAA
24045843 A
1 A
24045844 TAATTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
28 8 0.32
29 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
AATATTAATAATATTTAAACATATATAA
Found at i:24046458 original size:17 final size:17
Alignment explanation
Indices: 24046436--24046470 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24046426 TTAACCGATT
24046436 TTACAGAATCTTTATTC
1 TTACAGAATCTTTATTC
24046453 TTACAGAATCTTTATTC
1 TTACAGAATCTTTATTC
24046470 T
1 T
24046471 ATGTCTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (17 bp):
TTACAGAATCTTTATTC
Found at i:24056009 original size:38 final size:38
Alignment explanation
Indices: 24055913--24055990 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
24055903 AGTTGGCTAC
*
24055913 TGCATTCTCTGTTGAATCATTAATCTTATCCTCCAAGT
1 TGCATTCTCTGTCGAATCATTAATCTTATCCTCCAAGT
*
24055951 TGCATTCTCTGTCGAATCATTAATCTTATCCTCCTAGT
1 TGCATTCTCTGTCGAATCATTAATCTTATCCTCCAAGT
24055989 TG
1 TG
24055991 GCTTTCTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (38 bp):
TGCATTCTCTGTCGAATCATTAATCTTATCCTCCAAGT
Found at i:24069453 original size:14 final size:14
Alignment explanation
Indices: 24069434--24069464 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24069424 TTTATTTATG
24069434 CATATCTCTTATCA
1 CATATCTCTTATCA
24069448 CATATCTCTTATCA
1 CATATCTCTTATCA
24069462 CAT
1 CAT
24069465 GATACCTGTC
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:0.29, G:0.00, T:0.42
Consensus pattern (14 bp):
CATATCTCTTATCA
Found at i:24076060 original size:2 final size:2
Alignment explanation
Indices: 24076053--24076084 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24076043 TAACTACATG
24076053 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24076085 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:24078631 original size:3 final size:3
Alignment explanation
Indices: 24078617--24078656 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
24078607 TAACAAAAGC
*
24078617 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24078657 ATGTATGACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:24079053 original size:31 final size:31
Alignment explanation
Indices: 24079018--24079109 Score: 77
Period size: 31 Copynumber: 3.0 Consensus size: 31
24079008 ATAAGTCAAG
24079018 ACTTCAGGTCCCCCTTTACCTACTCGTGGGA
1 ACTTCAGGTCCCCCTTTACCTACTCGTGGGA
* ** * *
24079049 ACTTCCCAGG-CCACC---AAATATTAGTCGGG-
1 ACTT--CAGGTCCCCCTTTACCTACTCGT-GGGA
24079078 ACTTCAGGTCCCCCTTTACCTACTCGTGGGA
1 ACTTCAGGTCCCCCTTTACCTACTCGTGGGA
24079109 A
1 A
24079110 GTCCTTATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 16
0.62 0.14 0.23
Matches are distributed among these distances:
27 4 0.09
28 4 0.09
29 10 0.23
30 6 0.14
31 11 0.26
32 4 0.09
33 4 0.09
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.26
Consensus pattern (31 bp):
ACTTCAGGTCCCCCTTTACCTACTCGTGGGA
Found at i:24079215 original size:60 final size:59
Alignment explanation
Indices: 24078983--24079207 Score: 218
Period size: 60 Copynumber: 3.7 Consensus size: 59
24078973 ACACCTATTT
* *
24078983 GTGGGAACTCCCCACACCATCC-AATATAAGTCAAGACTTCAGGTCCCCCTTTACCTACTC
1 GTGGGAACT-CCCACACCA-CCGAATATGAGTCGAGACTTCAGGTCCCCCTTTACCTACTC
** * * *
24079043 GTGGGAACTTCCCAGGCCACCAAATATTAGTCGGGACTTCAGGTCCCCCTTTACCTACTC
1 GTGGGAAC-TCCCACACCACCGAATATGAGTCGAGACTTCAGGTCCCCCTTTACCTACTC
* * **** ** * * *
24079103 GTGGGAAGTCCTTATGTTACCGAATATGAGTCGAGGTTTTAGGTCTCCCTTTACTTACTC
1 GTGGGAACTCC-CACACCACCGAATATGAGTCGAGACTTCAGGTCCCCCTTTACCTACTC
* *
24079163 GTGGGAACTACCCACACCACCGAATATGAGTCGGGGCTTCAGGTC
1 GTGGGAACT-CCCACACCACCGAATATGAGTCGAGACTTCAGGTC
24079208 TTCCTTTATT
Statistics
Matches: 134, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
59 5 0.04
60 126 0.94
61 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (59 bp):
GTGGGAACTCCCACACCACCGAATATGAGTCGAGACTTCAGGTCCCCCTTTACCTACTC
Found at i:24081108 original size:2 final size:2
Alignment explanation
Indices: 24081101--24081125 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24081091 CTTGTCCATA
24081101 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
24081126 ATACACCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:24089313 original size:27 final size:27
Alignment explanation
Indices: 24089256--24089318 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
24089246 TCAAAAAATC
* *
24089256 AAAAAATAAATAATAATGAAATATAAT
1 AAAAAATAAAAAACAATGAAATATAAT
24089283 AAAAAATAAAAAACAA-GAAATA-AAT
1 AAAAAATAAAAAACAATGAAATATAAT
*
24089308 TAAAAA-AAAAA
1 AAAAAATAAAAA
24089319 GAAGAACAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 8 0.24
26 6 0.18
27 14 0.42
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAAACAATGAAATATAAT
Found at i:24090161 original size:26 final size:28
Alignment explanation
Indices: 24090123--24090175 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
24090113 GAGAAAGAGG
24090123 AAGAGAGAAAAGG-AAAG-AAAAGAAAA
1 AAGAGAGAAAAGGAAAAGAAAAAGAAAA
24090149 AAGAGA-AAGAAGGAAAAGAAAAAGAAA
1 AAGAGAGAA-AAGGAAAAGAAAAAGAAA
24090176 GAGGGAGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 2 0.08
26 10 0.42
27 4 0.17
28 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (28 bp):
AAGAGAGAAAAGGAAAAGAAAAAGAAAA
Found at i:24090982 original size:2 final size:2
Alignment explanation
Indices: 24090975--24091009 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24090965 CAATTAATGA
24090975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24091010 GTAAGTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24092568 original size:31 final size:32
Alignment explanation
Indices: 24092531--24092591 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
24092521 AATAATTTTT
* *
24092531 TTTTATA-AATTGATCTAAATAATAAAAAATA
1 TTTTATACAATTGATCTAAACAACAAAAAATA
*
24092562 TTTTATACAATTTATCTAAACAACAAAAAA
1 TTTTATACAATTGATCTAAACAACAAAAAA
24092592 AATTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (32 bp):
TTTTATACAATTGATCTAAACAACAAAAAATA
Found at i:24094257 original size:14 final size:13
Alignment explanation
Indices: 24094238--24094271 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
24094228 AAATCCAAAC
24094238 TTAATTAATTCAAT
1 TTAATTAATTC-AT
*
24094252 TTAATTCATTCAT
1 TTAATTAATTCAT
24094265 TTAATTA
1 TTAATTA
24094272 TTACGAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTAATTCAT
Found at i:24095299 original size:21 final size:22
Alignment explanation
Indices: 24095253--24095300 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
24095243 CACTAAAGAA
*
24095253 GAAATCAACAAATAAACTAAAT
1 GAAATTAACAAATAAACTAAAT
* *
24095275 -AAATTAACAAATCAA-TATAT
1 GAAATTAACAAATAAACTAAAT
24095295 GAAATT
1 GAAATT
24095301 GGTCATAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (22 bp):
GAAATTAACAAATAAACTAAAT
Found at i:24098690 original size:2 final size:2
Alignment explanation
Indices: 24098683--24098712 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24098673 TGTCTTCAAA
24098683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24098713 GCAAGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24100191 original size:19 final size:19
Alignment explanation
Indices: 24100164--24100204 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
24100154 ATCGACAACT
* *
24100164 TTACTAACAAAATTTTTGG
1 TTACCAACAAAATTTTTCG
24100183 TTACCAACAAAATTTTTCG
1 TTACCAACAAAATTTTTCG
24100202 TTA
1 TTA
24100205 TCAAAGGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACCAACAAAATTTTTCG
Found at i:24104635 original size:57 final size:57
Alignment explanation
Indices: 24104567--24104680 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
24104557 CGTTGAGTTT
*
24104567 GAGTTTGATTTAATCAAAGGCTAGAAAAGCTTAAAAAAATTTAAGCCAAGGTACAAA
1 GAGTTTGATTTAATCAAAGGCTAGAAAAGCTTAAAAAAATTAAAGCCAAGGTACAAA
*
24104624 GAGTTTGATTTAATCAAAGGCTGGAAAAGCTTAAAAAAATTAAAGCCAAGGTACAAA
1 GAGTTTGATTTAATCAAAGGCTAGAAAAGCTTAAAAAAATTAAAGCCAAGGTACAAA
24104681 AAGTCACTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (57 bp):
GAGTTTGATTTAATCAAAGGCTAGAAAAGCTTAAAAAAATTAAAGCCAAGGTACAAA
Found at i:24129926 original size:20 final size:20
Alignment explanation
Indices: 24129889--24129927 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24129879 TTGGCTTCAT
*
24129889 TAAAAAAAATGTTATATTAG
1 TAAAAAAAATATTATATTAG
* *
24129909 TAAAAAATATATTTTATTA
1 TAAAAAAAATATTATATTA
24129928 AAATTTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAAAAAAATATTATATTAG
Found at i:24129969 original size:19 final size:20
Alignment explanation
Indices: 24129935--24129973 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24129925 TTAAAATTTA
24129935 ATTTTAAAATATTAATTAAT
1 ATTTTAAAATATTAATTAAT
*
24129955 ATTTTATAATA-TAATTAAT
1 ATTTTAAAATATTAATTAAT
24129974 TTAAATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTAAAATATTAATTAAT
Found at i:24133273 original size:243 final size:243
Alignment explanation
Indices: 24132845--24133330 Score: 886
Period size: 243 Copynumber: 2.0 Consensus size: 243
24132835 AGCAGTCATC
*
24132845 CAATCAGACTATTAAACAAACCAAACAAAAACAGTGCAACAACCAGATAAAAAGCTCAAGCAAAG
1 CAATCAGACTATTAAACAAACCAAACAAAAACAATGCAACAACCAGATAAAAAGCTCAAGCAAAG
24132910 AATGCCAAGTACCTGAGTTGCCAATATATTTCCTCTCAGTCTTATCATACGGTACTTAAATAAGG
66 AATGCCAAGTACCTGAGTTGCCAATATATTTCCTCTCAGTCTTATCATACGGTACTTAAATAAGG
24132975 CTCTAGTTTTTATCGTAATTCCAGTTTAAAGCATCATCAATTGCCAGAAAAATTTCCCAAAAGTA
131 CTCTAGTTTTTATCGTAATTCCAGTTTAAAGCATCATCAATTGCCAGAAAAATTTCCCAAAAGTA
24133040 AACTCTGAAGCACATAAAGAGTCTTACTCATCTAATTAGTCCAAAATG
196 AACTCTGAAGCACATAAAGAGTCTTACTCATCTAATTAGTCCAAAATG
* *
24133088 CAATCAGACTATTAAACAAACCAAACAAAAACAATGCAACAACCCGATAAAATGCTCAAGCAAAG
1 CAATCAGACTATTAAACAAACCAAACAAAAACAATGCAACAACCAGATAAAAAGCTCAAGCAAAG
*
24133153 AATGCCGAA-TACCTGAGTTGGCAATATATTTCCTCTCAGTCTTATCATACGGTACTTAAATAAG
66 AATGCC-AAGTACCTGAGTTGCCAATATATTTCCTCTCAGTCTTATCATACGGTACTTAAATAAG
*
24133217 GCTCTAGTTTTTACTC-TAATTCCAGTTTAAAGCATCATCAATTGCTAGAAAAATTTCCCAAAAG
130 GCTCTAGTTTTTA-TCGTAATTCCAGTTTAAAGCATCATCAATTGCCAGAAAAATTTCCCAAAAG
*
24133281 TAAACTTTGAAGCACATAAAGAGTCTTACTCATCTAATTAGTCCAAAATG
194 TAAACTCTGAAGCACATAAAGAGTCTTACTCATCTAATTAGTCCAAAATG
24133331 AAACATGTAA
Statistics
Matches: 235, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
243 231 0.98
244 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (243 bp):
CAATCAGACTATTAAACAAACCAAACAAAAACAATGCAACAACCAGATAAAAAGCTCAAGCAAAG
AATGCCAAGTACCTGAGTTGCCAATATATTTCCTCTCAGTCTTATCATACGGTACTTAAATAAGG
CTCTAGTTTTTATCGTAATTCCAGTTTAAAGCATCATCAATTGCCAGAAAAATTTCCCAAAAGTA
AACTCTGAAGCACATAAAGAGTCTTACTCATCTAATTAGTCCAAAATG
Found at i:24134742 original size:66 final size:66
Alignment explanation
Indices: 24134653--24134792 Score: 230
Period size: 66 Copynumber: 2.1 Consensus size: 66
24134643 TTTACTAATA
*
24134653 CTAGTAGTATTCCTTTTTATTTGACTATCTAGAAAATTATTTAGAAAA-AGAAATTTAAATAATA
1 CTAGTAGTATT-CTTTTTATTTGAATATCTAGAAAATTATTTAGAAAATA-AAATTTAAATAA-A
24134717 AATG
63 AATG
24134721 CTAGTAGTATT-TTTTTATTTGAATATCTAGAAAATTATTTAGAAAATAAAATTTAAATAAAAAT
1 CTAGTAGTATTCTTTTTATTTGAATATCTAGAAAATTATTTAGAAAATAAAATTTAAATAAAAAT
24134785 G
66 G
24134786 CTAGTAG
1 CTAGTAG
24134793 GTTGGAATTG
Statistics
Matches: 70, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
65 12 0.17
66 46 0.66
67 1 0.01
68 11 0.16
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.40
Consensus pattern (66 bp):
CTAGTAGTATTCTTTTTATTTGAATATCTAGAAAATTATTTAGAAAATAAAATTTAAATAAAAAT
G
Found at i:24136535 original size:2 final size:2
Alignment explanation
Indices: 24136528--24136556 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24136518 GCAGGTTTGA
24136528 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24136557 AATACTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24139101 original size:2 final size:2
Alignment explanation
Indices: 24139089--24139139 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
24139079 GAATTAACTT
* *
24139089 TA TA TA CA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24139131 TA TA TA TA T
1 TA TA TA TA T
24139140 TTCTCTATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:24141762 original size:22 final size:22
Alignment explanation
Indices: 24141734--24141778 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24141724 CATAAGAATG
*
24141734 TCCACATACAGGTAAAGTTTAT
1 TCCACATACAGGCAAAGTTTAT
24141756 TCCACATACAGGCAAAGTTTAT
1 TCCACATACAGGCAAAGTTTAT
24141778 T
1 T
24141779 ACGTGACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (22 bp):
TCCACATACAGGCAAAGTTTAT
Found at i:24142721 original size:21 final size:20
Alignment explanation
Indices: 24142693--24142732 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
24142683 TGAAAACCGG
24142693 TATAGTTG-TCAATATTGTAT
1 TATAGTTGTTC-ATATTGTAT
24142713 TATACGTTGTTCATATTGTA
1 TATA-GTTGTTCATATTGTA
24142733 CAATACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (20 bp):
TATAGTTGTTCATATTGTAT
Found at i:24149834 original size:32 final size:29
Alignment explanation
Indices: 24149765--24149835 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 29
24149755 TTGAATATGA
24149765 CGTATAACAATAATATTTTTTCAACATGG
1 CGTATAACAATAATATTTTTTCAACATGG
* *
24149794 CATGTAACAATAATATTTTTTTTTCAACATGG
1 CGTATAACAATAATA---TTTTTTCAACATGG
*
24149826 TGTATAACAA
1 CGTATAACAA
24149836 CCTTTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.38
32 21 0.62
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (29 bp):
CGTATAACAATAATATTTTTTCAACATGG
Found at i:24149984 original size:24 final size:24
Alignment explanation
Indices: 24149950--24149998 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
24149940 TTTGTACATA
24149950 ATGTTTCTGTACATGGCGTGTCAC
1 ATGTTTCTGTACATGGCGTGTCAC
* *
24149974 ATGTTTTTGTACATTGCGTGTCAC
1 ATGTTTCTGTACATGGCGTGTCAC
24149998 A
1 A
24149999 ATCTAACCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (24 bp):
ATGTTTCTGTACATGGCGTGTCAC
Found at i:24150038 original size:45 final size:45
Alignment explanation
Indices: 24149968--24150088 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
24149958 GTACATGGCG
* * *
24149968 TGTCACATGTTTTTGTACATTGCGTGTCACAA-TCTAACCATGACT-
1 TGTCACATATTTTTGTACATAGCGTGTAACAACT-TAACCATG-CTA
* * * *
24150013 TGTCACATATTTTTGCACATGGCGTGTAACAACTTAATCATGGTA
1 TGTCACATATTTTTGTACATAGCGTGTAACAACTTAACCATGCTA
*
24150058 TGTAACATATTTTTGTACATAGCGTGTAACA
1 TGTCACATATTTTTGTACATAGCGTGTAACA
24150089 TCATAATTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.02
45 63 0.97
46 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (45 bp):
TGTCACATATTTTTGTACATAGCGTGTAACAACTTAACCATGCTA
Found at i:24158674 original size:2 final size:2
Alignment explanation
Indices: 24158667--24158705 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24158657 GTTTTCATCC
24158667 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
24158706 CTTTTTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:24179960 original size:30 final size:30
Alignment explanation
Indices: 24179919--24179980 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
24179909 GGGTCCACCT
*
24179919 AGAATAGTTTCCACAACGCAAGAGCGAAGG
1 AGAATAGTTTCCACAACGCAAAAGCGAAGG
*
24179949 AGAATATTTTCCACAACGCAAAAGCGAAGG
1 AGAATAGTTTCCACAACGCAAAAGCGAAGG
24179979 AG
1 AG
24179981 TCATTGCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (30 bp):
AGAATAGTTTCCACAACGCAAAAGCGAAGG
Found at i:24191703 original size:18 final size:18
Alignment explanation
Indices: 24191680--24191719 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24191670 ATTTGAGTAA
24191680 ATTTAAATAAATTATTAT
1 ATTTAAATAAATTATTAT
* *
24191698 ATTTAATTAAATTTTTAT
1 ATTTAAATAAATTATTAT
24191716 ATTT
1 ATTT
24191720 TTATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAAATAAATTATTAT
Found at i:24204184 original size:14 final size:15
Alignment explanation
Indices: 24204155--24204185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24204145 AACTATCTTC
*
24204155 AAATTTTTTAAAAAA
1 AAATTATTTAAAAAA
24204170 AAATTATTTAAAAAA
1 AAATTATTTAAAAAA
24204185 A
1 A
24204186 TAACGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTATTTAAAAAA
Found at i:24214215 original size:21 final size:21
Alignment explanation
Indices: 24214191--24214230 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24214181 GAGAGAAGGG
*
24214191 AAAAA-GGTGAGGAAAGAAAAA
1 AAAAATGGAGAGG-AAGAAAAA
24214212 AAAAATGGAGAGGAAGAAA
1 AAAAATGGAGAGGAAGAAA
24214231 CGTTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (21 bp):
AAAAATGGAGAGGAAGAAAAA
Found at i:24233569 original size:170 final size:169
Alignment explanation
Indices: 24233351--24233703 Score: 429
Period size: 169 Copynumber: 2.1 Consensus size: 169
24233341 TAAAACCAAG
* * *
24233351 ACCCCTCCCTTACCTATCCACTGCGGGATTCAGTCACAATCTCTCCCACCTGAATCCGCAACGCC
1 ACCCCTCCCTTACCTATCCAATGCGGGATTCAGTCACAATCTCTCCCACCTGAATCCACAACACC
* * * * *
24233416 CTCGTCACAGGTTGAGTCACCTTGCATCTTTGTCA-AGGGACCATTACCCTTTCCTCAAAACACT
66 CTCGTCACAGGTCGAGTCACCTTG-ATCTTTGTCACA-AGACAATCACCCTCTCCTCAAAACACT
* ** * *
24233480 AACCTGATGAGATGTGCAGCACCCATATGTATAAGCTCAAA
129 AACCTAATGAGATGCACAACACCCATATATATAAGCTCAAA
** ** * **
24233521 ACCCCTCCCTTACCTATCCAATTTGGGATTCCTTCACATTCTCTCCCACCTGAATCCATGACACC
1 ACCCCTCCCTTACCTATCCAATGCGGGATTCAGTCACAATCTCTCCCACCTGAATCCACAACACC
* * *
24233586 CTCGTCGCAGGTCGGGTCACCTTGATCTTTGTCACAAGATAATCACCCTCTCCTCAAAACACTAA
66 CTCGTCACAGGTCGAGTCACCTTGATCTTTGTCACAAGACAATCACCCTCTCCTCAAAACACTAA
* * * *
24233651 CCTAATGGGATGCACAACACCCATGTATATAAGCTTAGA
131 CCTAATGAGATGCACAACACCCATATATATAAGCTCAAA
*
24233690 ACCCCTTCCTTACC
1 ACCCCTCCCTTACC
24233704 CATCTGATTT
Statistics
Matches: 154, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
169 77 0.50
170 77 0.50
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.26
Consensus pattern (169 bp):
ACCCCTCCCTTACCTATCCAATGCGGGATTCAGTCACAATCTCTCCCACCTGAATCCACAACACC
CTCGTCACAGGTCGAGTCACCTTGATCTTTGTCACAAGACAATCACCCTCTCCTCAAAACACTAA
CCTAATGAGATGCACAACACCCATATATATAAGCTCAAA
Found at i:24241459 original size:31 final size:31
Alignment explanation
Indices: 24241421--24241670 Score: 347
Period size: 31 Copynumber: 7.8 Consensus size: 31
24241411 AACATTGACA
* *
24241421 TGTTACAATACTTTACGTTATATGCATGGCG
1 TGTTACAACATTTTACGTTATATGCATGGCG
24241452 TGTTACAACATTTTACGTTATATGCATGGCG
1 TGTTACAACATTTTACGTTATATGCATGGCG
*
24241483 TGTTACCACATTTTACGTTTACGTTATATGCATGGCG
1 TGTTACAACA---T---TTTACGTTATATGCATGGCG
*
24241520 TGTTACCACATTTTACGTTATATGCATGGCG
1 TGTTACAACATTTTACGTTATATGCATGGCG
* *
24241551 TGTTACAACATTTTATGTTATATGTATGGCG
1 TGTTACAACATTTTACGTTATATGCATGGCG
* * * *
24241582 TGTTACCACATTGTATGTTATATGCATGGCA
1 TGTTACAACATTTTACGTTATATGCATGGCG
24241613 TGTTACAACATTTTACGTTATATGCATGGCG
1 TGTTACAACATTTTACGTTATATGCATGGCG
24241644 TGTTACAACATTTTTACGTTATATGCA
1 TGTTACAACA-TTTTACGTTATATGCA
24241671 CGTTATATGC
Statistics
Matches: 198, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
31 150 0.76
32 16 0.08
34 2 0.01
37 30 0.15
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (31 bp):
TGTTACAACATTTTACGTTATATGCATGGCG
Found at i:24241498 original size:62 final size:62
Alignment explanation
Indices: 24241421--24241728 Score: 355
Period size: 62 Copynumber: 4.7 Consensus size: 62
24241411 AACATTGACA
* *
24241421 TGTTACAATACTTTACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGCATGGCG
1 TGTTACAACATTTTACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGCATGGCG
* *
24241483 TGTTACCACATTTTACGTTTACGTTATATGCATGGCGTGTTACCACATTTTACGTTATATGCATG
1 TGTTACAACA---T---TTTACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGCATG
24241548 GCG
60 GCG
* * * * * *
24241551 TGTTACAACATTTTATGTTATATGTATGGCGTGTTACCACATTGTATGTTATATGCATGGCA
1 TGTTACAACATTTTACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGCATGGCG
24241613 TGTTACAACATTTTACGTTATATGCATGGCGTGTTACAACATTTTTACGTTATATGCACGTTATA
1 TGTTACAACATTTTACGTTATATGCATGGCGTGTTACAAC------A--TT-T-T--ACGTTATA
24241678 TGCATGGCG
54 TGCATGGCG
*
24241687 TGTTACAACATTTTACGTTATATGCATGGCGTGTAACAACAT
1 TGTTACAACATTTTACGTTATATGCATGGCGTGTTACAACAT
24241729 GACCGATAAA
Statistics
Matches: 211, Mismatches: 17, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
62 91 0.43
65 1 0.00
66 1 0.00
68 61 0.29
70 2 0.01
72 1 0.00
74 54 0.26
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (62 bp):
TGTTACAACATTTTACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGCATGGCG
Found at i:24241675 original size:43 final size:42
Alignment explanation
Indices: 24241627--24241712 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 42
24241617 ACAACATTTT
24241627 ACGTTATATGCATGGCGTGTTACAACATTTTTACGTTATATGC
1 ACGTTATATGCATGGCGTGTTACAACA-TTTTACGTTATATGC
24241670 ACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGC
1 ACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGC
24241712 A
1 A
24241713 TGGCGTGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 16 0.37
43 27 0.63
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (42 bp):
ACGTTATATGCATGGCGTGTTACAACATTTTACGTTATATGC
Found at i:24241705 original size:31 final size:31
Alignment explanation
Indices: 24241670--24241728 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
24241660 CGTTATATGC
*
24241670 ACGTTATATGCATGGCGTGTTACAACATTTT
1 ACGTTATATGCATGGCGTGTAACAACATTTT
24241701 ACGTTATATGCATGGCGTGTAACAACAT
1 ACGTTATATGCATGGCGTGTAACAACAT
24241729 GACCGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (31 bp):
ACGTTATATGCATGGCGTGTAACAACATTTT
Found at i:24245420 original size:86 final size:86
Alignment explanation
Indices: 24245270--24245626 Score: 484
Period size: 86 Copynumber: 4.2 Consensus size: 86
24245260 AAGCAGATGC
* * * * *
24245270 TTGTGGTGACACGTTGAGTGCATGTAGACTTATGGCGTGACATGTTGACTTGTTACAATCTTGTG
1 TTGTGGTGACACGCTGAGTGAATGTAGACTTATGGCGTGACACGCTGACTTGTTACAGTCTTGTG
**
24245335 GGGTGACACAACACTAGCCAA
66 GGGTGACACGGCACTAGCCAA
* *
24245356 TTGTGGTGACACGCTGAGTGAAT-TCAGACTTATGGCTTGACACGCTGACTTGTTACAGTTTTGT
1 TTGTGGTGACACGCTGAGTGAATGT-AGACTTATGGCGTGACACGCTGACTTGTTACAGTCTTGT
*
24245420 GGAGTGACACGGCACGT-GCCAA
65 GGGGTGACACGGCAC-TAGCCAA
* * * *
24245442 TTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACATGCTGACTTGTTTCAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGAATGTAGACTTATGGCGTGACACGCTGACTTGTTACAGTCTTGTG
* *
24245507 GGGTGACATGGCACCAGCCAA
66 GGGTGACACGGCACTAGCCAA
* * *
24245528 TTGTGGTGACACGCTGAGTGCATGTAGACTTTTGACGTGACACGCTGACTTGTTACAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGAATGTAGACTTATGGCGTGACACGCTGACTTGTTACAGTCTTGTG
**
24245593 GGGTGACACGGCACGGGCCAA
66 GGGTGACACGGCACTAGCCAA
*
24245614 TTGTTGTGACACG
1 TTGTGGTGACACG
24245627 GCACGAGCCA
Statistics
Matches: 237, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.00
86 235 0.99
87 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (86 bp):
TTGTGGTGACACGCTGAGTGAATGTAGACTTATGGCGTGACACGCTGACTTGTTACAGTCTTGTG
GGGTGACACGGCACTAGCCAA
Found at i:24245571 original size:172 final size:172
Alignment explanation
Indices: 24245270--24245626 Score: 545
Period size: 172 Copynumber: 2.1 Consensus size: 172
24245260 AAGCAGATGC
* * *
24245270 TTGTGGTGACACGTTGAGTGCATGTAGACTTATGGCGTGACATGTTGACTTGTTACAATCTTGTG
1 TTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACATGCTGACTTGTTACAATCTTGTG
* * *
24245335 GGGTGACACAACACTAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGGCTTGACACG
66 GGGTGACACAACACCAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGACGTGACACG
* *
24245400 CTGACTTGTTACAGTTTTGTGGAGTGACACGGCACGTGCCAA
131 CTGACTTGTTACAGTCTTGTGGAGTGACACGGCACGGGCCAA
* *
24245442 TTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACATGCTGACTTGTTTCAGTCTTGTG
1 TTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACATGCTGACTTGTTACAATCTTGTG
*** * *
24245507 GGGTGACATGGCACCAGCCAATTGTGGTGACACGCTGAGTGCATGT-AGACTTTTGACGTGACAC
66 GGGTGACACAACACCAGCCAATTGTGGTGACACGCTGAGTGAAT-TCAGACTTATGACGTGACAC
*
24245571 GCTGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAA
130 GCTGACTTGTTACAGTCTTGTGGAGTGACACGGCACGGGCCAA
*
24245614 TTGTTGTGACACG
1 TTGTGGTGACACG
24245627 GCACGAGCCA
Statistics
Matches: 167, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
172 166 0.99
173 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (172 bp):
TTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACATGCTGACTTGTTACAATCTTGTG
GGGTGACACAACACCAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGACGTGACACG
CTGACTTGTTACAGTCTTGTGGAGTGACACGGCACGGGCCAA
Found at i:24245622 original size:24 final size:24
Alignment explanation
Indices: 24245595--24245650 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
24245585 GTCTTGTGGG
*
24245595 GTGACACGGCACGGGCCAATTGTT
1 GTGACACGGCACGAGCCAATTGTT
24245619 GTGACACGGCACGAGCCAATTGTT
1 GTGACACGGCACGAGCCAATTGTT
24245643 GTGACACG
1 GTGACACG
24245651 CTGAGTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (24 bp):
GTGACACGGCACGAGCCAATTGTT
Found at i:24245630 original size:110 final size:110
Alignment explanation
Indices: 24245508--24245736 Score: 386
Period size: 110 Copynumber: 2.1 Consensus size: 110
24245498 AGTCTTGTGG
* * *
24245508 GGTGACATGGCACCAGCCAATTGTGGTGACACGCTGAGTGCATGTAGACTTTTGACGTGACACGC
1 GGTGACACGGCACCAGCCAATTGTGGTGACACGCTGAGTGCATGTAGACTTCTGACGTGACACAC
24245573 TGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGT
66 TGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGT
* * * * *
24245618 TGTGACACGGCACGAGCCAATTGTTGTGACACGCTGAGTGTATGTAGACTTCTGGCGTGACACAC
1 GGTGACACGGCACCAGCCAATTGTGGTGACACGCTGAGTGCATGTAGACTTCTGACGTGACACAC
24245683 TGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGT
66 TGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGT
24245728 GGTGACACG
1 GGTGACACG
24245737 TTGAGTGAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (110 bp):
GGTGACACGGCACCAGCCAATTGTGGTGACACGCTGAGTGCATGTAGACTTCTGACGTGACACAC
TGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGT
Found at i:24245676 original size:196 final size:196
Alignment explanation
Indices: 24245423--24245822 Score: 611
Period size: 196 Copynumber: 2.0 Consensus size: 196
24245413 GTTTTGTGGA
* * **
24245423 GTGACACGGCACGTGCCAATTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACATGCT
1 GTGACACGGCACGAGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACACT
* * * *
24245488 GACTTGTTTCAGTCTTGTGGGGTGACATGGCACCAGCCAATTGTGGTGACACGCTGAGTGCATGT
66 GACTTGTTACAGTCTTGTGGGGTGACACGGCACCAGCCAATTGTGGTGACACGCTGAGTGAATGC
* * *
24245553 AGACTTTTGACGTGACACGCTGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGT
131 AGACTTATGACGTGACACGCTGACTTGTTACAGTCTTGTGGGGTGACACGGCACAGGCCAATTAT
*
24245618 T
196 G
* * * *
24245619 GTGACACGGCACGAGCCAATTGTTGTGACACGCTGAGTGTATGTAGACTTCTGGCGTGACACACT
1 GTGACACGGCACGAGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACACT
** *
24245684 GACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAATGC
66 GACTTGTTACAGTCTTGTGGGGTGACACGGCACCAGCCAATTGTGGTGACACGCTGAGTGAATGC
* *
24245749 AGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACAGGCCAATTAT
131 AGACTTATGACGTGACACGCTGACTTGTTACAGTCTTGTGGGGTGACACGGCACAGGCCAATTAT
24245814 G
196 G
24245815 GTGACACG
1 GTGACACG
24245823 CTGAGTGCAT
Statistics
Matches: 183, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
196 183 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (196 bp):
GTGACACGGCACGAGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACACT
GACTTGTTACAGTCTTGTGGGGTGACACGGCACCAGCCAATTGTGGTGACACGCTGAGTGAATGC
AGACTTATGACGTGACACGCTGACTTGTTACAGTCTTGTGGGGTGACACGGCACAGGCCAATTAT
G
Found at i:24245764 original size:86 final size:86
Alignment explanation
Indices: 24245619--24246012 Score: 554
Period size: 86 Copynumber: 4.6 Consensus size: 86
24245609 GCCAATTGTT
* * * * * *
24245619 GTGACACGGCACGAGCCAATTGTTGTGACACGCTGAGTGTATGTAGACTTCTGGCGTGACACACT
1 GTGACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACGCT
*
24245684 GACTTGTTACAGTCTTGTGGG
66 GACTTGTTGCAGTCTTGTGGG
*
24245705 GTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACACGCT
1 GTGACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACGCT
24245770 GACTTGTTGCAGTCTTGTGGG
66 GACTTGTTGCAGTCTTGTGGG
* * * * * * *
24245791 GTGACACGGCACAGGCCAATTATGGTGACACGCTGAGTGCATGTAGACTTATGTCATGATACGCT
1 GTGACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACGCT
*
24245856 GACTTGTTGCAATCTTGTGGG
66 GACTTGTTGCAGTCTTGTGGG
* * *
24245877 CTAACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGACGTGACACGCT
1 GTGACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACGCT
* *
24245942 GACTTGTTGTAGCCTTGTGGG
66 GACTTGTTGCAGTCTTGTGGG
* * * * *
24245963 ATGACACGGCACGGGCCAATTGTGGTGATACGTTTAGTGAATGCTGACTT
1 GTGACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTT
24246013 GTTGCAGTCT
Statistics
Matches: 273, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 273 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (86 bp):
GTGACACGGCACGGGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACGCT
GACTTGTTGCAGTCTTGTGGG
Found at i:24245857 original size:282 final size:282
Alignment explanation
Indices: 24245336--24245908 Score: 898
Period size: 282 Copynumber: 2.0 Consensus size: 282
24245326 AATCTTGTGG
** * * *
24245336 GGTGACACAACACTAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGGCTTGACACGC
1 GGTGACACGGCACGAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGGCGTGACACAC
* *
24245401 TGACTTGTTACAGTTTTGTGGAGTGACACGGCACGTGCCAATTGTGGTGACACGTTGAGTGAATG
66 TGACTTGTTACAGTCTTGTGGAGTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAATG
* * * *
24245466 CAGACTTATGGCGTGACATGCTGACTTGTTTCAGTCTTGTGGGGTGACATGGCACCAGCCAATTG
131 CAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACCAGCCAATTA
* * * *
24245531 TGGTGACACGCTGAGTGCATGTAGACTTTTGACGTGACACGCTGACTTGTTACAGTCTTGTGGGG
196 TGGTGACACGCTGAGTGCATGTAGACTTATGACATGACACGCTGACTTGTTACAATCTTGTGGGC
*
24245596 TGACACGGCACGGGCCAATTGT
261 TAACACGGCACGGGCCAATTGT
* * * *
24245618 TGTGACACGGCACGAGCCAATTGTTGTGACACGCTGAGTGTATGT-AGACTTCTGGCGTGACACA
1 GGTGACACGGCACGAGCCAATTGTGGTGACACGCTGAGTGAAT-TCAGACTTATGGCGTGACACA
*
24245682 CTGACTTGTTACAGTCTTGTGGGGTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAAT
65 CTGACTTGTTACAGTCTTGTGGAGTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAAT
24245747 GCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCA-CAGGCCAAT
130 GCAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACCA-GCCAAT
* * *
24245811 TATGGTGACACGCTGAGTGCATGTAGACTTATGTCATGATACGCTGACTTGTTGCAATCTTGTGG
194 TATGGTGACACGCTGAGTGCATGTAGACTTATGACATGACACGCTGACTTGTTACAATCTTGTGG
24245876 GCTAACACGGCACGGGCCAATTGT
259 GCTAACACGGCACGGGCCAATTGT
24245900 GGTGACACG
1 GGTGACACG
24245909 CTGAGTGAAT
Statistics
Matches: 264, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
281 2 0.01
282 261 0.99
283 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.27
Consensus pattern (282 bp):
GGTGACACGGCACGAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGGCGTGACACAC
TGACTTGTTACAGTCTTGTGGAGTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAATG
CAGACTTATGGCGTGACACGCTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACCAGCCAATTA
TGGTGACACGCTGAGTGCATGTAGACTTATGACATGACACGCTGACTTGTTACAATCTTGTGGGC
TAACACGGCACGGGCCAATTGT
Found at i:24245961 original size:368 final size:368
Alignment explanation
Indices: 24245270--24245990 Score: 1057
Period size: 368 Copynumber: 2.0 Consensus size: 368
24245260 AAGCAGATGC
* ***
24245270 TTGTGGTGACACGTTGAGTGCATGTAGACTTATGGCGTGACATGTTGACTTGTTACAATCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGTAGACTTATGGCGTGACACACTGACTTGTTACAATCTTGTG
* * *
24245335 GGGTGACACAACACTAGCCAATTGTGGTGACACGCTGAGTGAATTCAGACTTATGGCTTGACACG
66 GGGTGACACAACACGAGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACG
* * *
24245400 CTGACTTGTTACAGTTTTGTGGAGTGACACGGCACGTGCCAATTGTGGTGACACGTTGAGTGAAT
131 CTGACTTGTTACAGTCTTGTGGAGTGACACGGCACGTGCCAATTATGGTGACACGCTGAGTGAAT
* * * * * * *
24245465 GCAGACTTATGGCGTGACATGCTGACTTGTTTCAGTCTTGTGGGGTGACATGGCACCAGCCAATT
196 GCAGACTTATGGCATGACACGCTGACTTGTTGCAATCTTGTGGGCTAACACGGCACCAGCCAATT
* * * *
24245530 GTGGTGACACGCTGAGTGCATGTAGACTTTTGACGTGACACGCTGACTTGTTACAGTCTTGTGGG
261 GTGGTGACACGCTGAGTGAATGCAGACTTATGACGTGACACGCTGACTTGTTACAGCCTTGTGGG
* *
24245595 GTGACACGGCACGGGCCAATTGTTGTGACACGGCACGAGCCAA
326 ATGACACGGCACGGGCCAATTGTGGTGACACGGCACGAGCCAA
* * * *
24245638 TTGTTGTGACACGCTGAGTGTATGTAGACTTCTGGCGTGACACACTGACTTGTTACAGTCTTGTG
1 TTGTGGTGACACGCTGAGTGCATGTAGACTTATGGCGTGACACACTGACTTGTTACAATCTTGTG
** * *
24245703 GGGTGACACGGCACGGGCCAATTGTGGTGACACGTTGAGTGAATGCAGACTTATGGCGTGACACG
66 GGGTGACACAACACGAGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACG
* * *
24245768 CTGACTTGTTGCAGTCTTGTGGGGTGACACGGCACAG-GCCAATTATGGTGACACGCTGAGTGCA
131 CTGACTTGTTACAGTCTTGTGGAGTGACACGGCAC-GTGCCAATTATGGTGACACGCTGAGTGAA
* * * **
24245832 TGTAGACTTATGTCATGATACGCTGACTTGTTGCAATCTTGTGGGCTAACACGGCACGGGCCAAT
195 TGCAGACTTATGGCATGACACGCTGACTTGTTGCAATCTTGTGGGCTAACACGGCACCAGCCAAT
**
24245897 TGTGGTGACACGCTGAGTGAATGCAGACTTATGACGTGACACGCTGACTTGTTGTAGCCTTGTGG
260 TGTGGTGACACGCTGAGTGAATGCAGACTTATGACGTGACACGCTGACTTGTTACAGCCTTGTGG
24245962 GATGACACGGCACGGGCCAATTGTGGTGA
325 GATGACACGGCACGGGCCAATTGTGGTGA
24245991 TACGTTTAGT
Statistics
Matches: 311, Mismatches: 41, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
368 310 1.00
369 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (368 bp):
TTGTGGTGACACGCTGAGTGCATGTAGACTTATGGCGTGACACACTGACTTGTTACAATCTTGTG
GGGTGACACAACACGAGCCAATTGTGGTGACACGCTGAGTGAATGCAGACTTATGGCGTGACACG
CTGACTTGTTACAGTCTTGTGGAGTGACACGGCACGTGCCAATTATGGTGACACGCTGAGTGAAT
GCAGACTTATGGCATGACACGCTGACTTGTTGCAATCTTGTGGGCTAACACGGCACCAGCCAATT
GTGGTGACACGCTGAGTGAATGCAGACTTATGACGTGACACGCTGACTTGTTACAGCCTTGTGGG
ATGACACGGCACGGGCCAATTGTGGTGACACGGCACGAGCCAA
Found at i:24247647 original size:81 final size:81
Alignment explanation
Indices: 24247389--24247658 Score: 272
Period size: 81 Copynumber: 3.3 Consensus size: 81
24247379 CTACTGCATA
* ** * * * ** * * * **
24247389 AGCCTCAGGAAGATGCTCTTCTTCAACCACGAGCGTTTGAAGGTCCCTCTCCCCTCCCGTAGATG
1 AGCCTCAGGAACATGGACTCCTTCAGCCACGAACGAGTGAAGATCCCCCTCCCTTCCCACAGATG
*
24247454 CATCGATAATCGAATT
66 CATCGATAATCGAATC
* * * * * *
24247470 AGCCTCAGGAACATGGACTCTTTCAGCCACGAATGAGTGAAGGTCCCCTTCCCTTCCCATATATG
1 AGCCTCAGGAACATGGACTCCTTCAGCCACGAACGAGTGAAGATCCCCCTCCCTTCCCACAGATG
* *
24247535 CATCTATAACCGAATC
66 CATCGATAATCGAATC
* * * *
24247551 AGCCTTAGGAACATGGACTCCTTCGGCCACGAGCGAGTGAAGATCCCCCTCCCTT-CTAGCAGAT
1 AGCCTCAGGAACATGGACTCCTTCAGCCACGAACGAGTGAAGATCCCCCTCCCTTCCCA-CAGAT
24247615 GCATCGATAATCGAATC
65 GCATCGATAATCGAATC
* *
24247632 AGCCTGAGGAACATGGACTCATTCAGC
1 AGCCTCAGGAACATGGACTCCTTCAGC
24247659 ATCATCTGAT
Statistics
Matches: 155, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 2 0.01
81 153 0.99
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (81 bp):
AGCCTCAGGAACATGGACTCCTTCAGCCACGAACGAGTGAAGATCCCCCTCCCTTCCCACAGATG
CATCGATAATCGAATC
Found at i:24249967 original size:31 final size:31
Alignment explanation
Indices: 24249932--24250021 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
24249922 AGAAAGAAAT
* *
24249932 AAATGTTGTTACACGTCATGCATATCAAGTA
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* * *
24249963 AAATGTTGTAACATGCCATGCATATTAAGTC
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* * *
24249994 AAATGTCGTGACACGCCGTGCATATCAA
1 AAATGTTGTAACACGCCATGCATATCAA
24250022 TGTCGTGACA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (31 bp):
AAATGTTGTAACACGCCATGCATATCAAGTA
Found at i:24250142 original size:55 final size:55
Alignment explanation
Indices: 24250065--24250589 Score: 474
Period size: 55 Copynumber: 9.8 Consensus size: 55
24250055 TCGTCACACC
* ** * * *
24250065 AACAACCGTGACACATTAAAAACAAAAAAAACTAGTTAACCCACAACACGTCAGG
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACACGCCAGG
* * * * *
24250120 AACAGTCGTGACACGCCAAAAACCTAAAAATCTAGTTAACCCAC-A-A-GCC-GTG
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACACGCCAG-G
* * *
24250172 -ACA--CGT--TA----AAAACCCAAAAAA-CCAGTTAACCCACAACACGTCAGG
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACACGCCAGG
* * *
24250217 AACAGCCGTGACACGCTAAAAAACTAAAAAATCCAGTTAACCCACTACACGCCAGG
1 AACAGCCGTGACACGCT-AAAAACCAAAAAAACCAGTTAACCCACAACACGCCAGG
* * *
24250273 AATAGCCGTGACACGTTAAAAATCC-AAAAAACCAGTTAACCCACAACACTCCAGG
1 AACAGCCGTGACACGCTAAAAA-CCAAAAAAACCAGTTAACCCACAACACGCCAGG
* * * * * *
24250328 AACAGCCGTGACATGTTAAAAACCCAAAAAACCAGTTAACCCATAGCACGCCAAG
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACACGCCAGG
* * *
24250383 AACAGTCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACATC-CCAGG
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACA-CGCCAGG
* * * ** *
24250438 AGCAGCGGTGACACGCCAAAAATCC-AAAAATTCAATTAACCCACAACACGCCAGG
1 AACAGCCGTGACACGCTAAAAA-CCAAAAAAACCAGTTAACCCACAACACGCCAGG
* * * * * * * *
24250493 AATAACCGTGACACGCTAAAAATCTAAAAAATCAGTT-ACCTACAACACACCAGA
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACACGCCAGG
* *
24250547 AATAGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCA
1 AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCA
24250590 AAAAACCAGT
Statistics
Matches: 387, Mismatches: 60, Indels: 46
0.78 0.12 0.09
Matches are distributed among these distances:
42 12 0.03
43 12 0.03
44 1 0.00
45 3 0.01
46 4 0.01
47 1 0.00
48 3 0.01
49 3 0.01
50 1 0.00
51 4 0.01
52 3 0.01
53 1 0.00
54 52 0.13
55 246 0.64
56 41 0.11
ACGTcount: A:0.45, C:0.29, G:0.13, T:0.13
Consensus pattern (55 bp):
AACAGCCGTGACACGCTAAAAACCAAAAAAACCAGTTAACCCACAACACGCCAGG
Found at i:24250173 original size:42 final size:42
Alignment explanation
Indices: 24250126--24250207 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
24250116 CAGGAACAGT
* * *
24250126 CGTGACACGCCAAAAACCTAAAAATCTAGTTAACCCACAAGC
1 CGTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAAGC
**
24250168 CGTGACACGTTAAAAACCCAAAAAACCAGTTAACCCACAA
1 CGTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAA
24250208 CACGTCAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.13
Consensus pattern (42 bp):
CGTGACACGCCAAAAACCCAAAAAACCAGTTAACCCACAAGC
Found at i:24250397 original size:110 final size:109
Alignment explanation
Indices: 24250165--24250589 Score: 532
Period size: 110 Copynumber: 3.9 Consensus size: 109
24250155 TTAACCCACA
*
24250165 AGCCGTGACACGTTAAAAACCCAAAAAACCAGTTAACCCACAACACGT-CAGGAACAGCCGTGAC
1 AGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACAC-TCCAGGAACAGCCGTGAC
* *
24250229 ACGCTAAAAAACTAAAAAATCCAGTTAACCCACTACACGCCAGGAAT
65 ACGCTAAAAACCCAAAAAA-CCAGTTAACCCA-TACACGCCAGGAAT
* *
24250276 AGCCGTGACACGTTAAAAATCCAAAAAACCAGTTAACCCACAACACTCCAGGAACAGCCGTGACA
1 AGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACTCCAGGAACAGCCGTGACA
* * * *
24250341 TGTTAAAAACCCAAAAAACCAGTTAACCCATAGCACGCCAAGAAC
66 CGCTAAAAACCCAAAAAACCAGTTAACCCATA-CACGCCAGGAAT
* * * *
24250386 AGTCGTGACACGCTAAAAACCCAAAAAATCAGTTAACCCACAACA-TCCCAGGAGCAGCGGTGAC
1 AGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACT-CCAGGAACAGCCGTGAC
* * ** * *
24250450 ACGCCAAAAATCCAAAAATTCAATTAACCCACAACACGCCAGGAAT
65 ACGCTAAAAACCCAAAAAACCAGTTAACCCA-TACACGCCAGGAAT
* * * * * * * *
24250496 AACCGTGACACGCTAAAAATCTAAAAAATCAGTT-ACCTACAACACACCAGAAATAGCCGTGACA
1 AGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACTCCAGGAACAGCCGTGACA
24250560 CGCTAAAAACCCAAAAAACCAGTTAACCCA
66 CGCTAAAAACCCAAAAAACCAGTTAACCCA
24250590 AAAAACCAGT
Statistics
Matches: 271, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
109 51 0.19
110 143 0.53
111 77 0.28
ACGTcount: A:0.44, C:0.30, G:0.13, T:0.13
Consensus pattern (109 bp):
AGCCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACTCCAGGAACAGCCGTGACA
CGCTAAAAACCCAAAAAACCAGTTAACCCATACACGCCAGGAAT
Found at i:24250589 original size:17 final size:17
Alignment explanation
Indices: 24250567--24250606 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
24250557 ACACGCTAAA
24250567 AACCCAAAAAACCAGTT
1 AACCCAAAAAACCAGTT
24250584 AACCCAAAAAACCAGTT
1 AACCCAAAAAACCAGTT
24250601 AACCCA
1 AACCCA
24250607 CAACACGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.53, C:0.33, G:0.05, T:0.10
Consensus pattern (17 bp):
AACCCAAAAAACCAGTT
Found at i:24251056 original size:23 final size:23
Alignment explanation
Indices: 24251013--24251077 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
24251003 TTTTTTCACA
**
24251013 CCATGACGTGTCACATATTCAAC
1 CCATGACGTGTCACACGTTCAAC
* *
24251036 CCATGGCGTGTCACACGTTCAAG
1 CCATGACGTGTCACACGTTCAAC
* * *
24251059 CCATGCCGTTTCATACGTT
1 CCATGACGTGTCACACGTT
24251078 TGACCATGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (23 bp):
CCATGACGTGTCACACGTTCAAC
Found at i:24251219 original size:104 final size:105
Alignment explanation
Indices: 24251111--24251772 Score: 568
Period size: 104 Copynumber: 6.5 Consensus size: 105
24251101 AAATGCTGCC
* * * * * * *
24251111 GTGTCACACTCGTCTCATATATTCTCACCGTGCCGTCTCACACATTATCACCCTGGCGTGTCAGA
1 GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACA
*
24251176 AATTTCCTCCATGGCGTGTCACACACTCTAAACCCT-ACA
66 AATTTCCTCCATGGCGTGTCACACACTCTAAACCCTGTCA
* * * *** * * *
24251215 GTGTCACACCTGTGTCACACATTATCACTGCACCATTTCACACATTATGACCCTGCCGTGTCAC-
1 GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACA
** * * *
24251279 ACGTT-CTGACCATGGTGTGTCATACACTCTAAACGCTGTC-
66 AATTTCCT--CCATGGCGTGTCACACACTCTAAACCCTGTCA
* * *
24251319 GTGTCACACCCGTGTCACATATTCTCACCGTGTCGTCTCACACATTAACACCCTGTCGTGTCACA
1 GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACA
* * *
24251384 AATTCCCTCCATGGTGTGTC-CACACTCTAAACCCTG-CC
66 AATTTCCTCCATGGCGTGTCACACACTCTAAACCCTGTCA
* ** * * *
24251422 GTGTCACACCC--GTCACACATTATCACTATGTCGTTTCACACATTATGACCCTGCCGTCTCAC-
1 GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACA
** * *
24251484 ACGTTCTGTCCATGGCATGTCACACACTCTAAA--C-G-C-
66 AATTTC-CTCCATGGCGTGTCACACACTCTAAACCCTGTCA
* *
24251520 ---T---A-CCGTGTCACATATTCTCA-CGATGTCGTCTCACACATTATCACCCTGTCGTGTCAC
1 GTGTCACACCCGTGTCACATATTATCACCG-TGTCGTCTCACACATTATCACCCTGCCGTGTCAC
* * * *
24251577 AGATTCCCTCCATGGCGTGTCACACACTCTAAAACTTGTCA
65 AAATTTCCTCCATGGCGTGTCACACACTCTAAACCCTGTCA
* * * * * * *
24251618 -TGTCACACCCATGTCACATATTATTACTGTGTCGTTTCACACATTATAACCTTACCGTGTCACA
1 GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACA
** ** *
24251682 CGTTT-GACCATGGTGTGTCACACACTCTAAACCCTGTCA
66 AATTTCCTCCATGGCGTGTCACACACTCTAAACCCTGTCA
* * *
24251721 -TGTCACACCCCTGTCACAT-TT-TCACCATGCCGTCTCACACATTATCACCCTG
1 GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTG
24251773 ACATGTCATG
Statistics
Matches: 441, Mismatches: 93, Indels: 51
0.75 0.16 0.09
Matches are distributed among these distances:
91 2 0.00
92 1 0.00
93 66 0.15
94 2 0.00
95 1 0.00
96 1 0.00
97 1 0.00
99 2 0.00
100 5 0.01
101 76 0.17
102 16 0.04
103 76 0.17
104 186 0.42
105 4 0.01
106 2 0.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (105 bp):
GTGTCACACCCGTGTCACATATTATCACCGTGTCGTCTCACACATTATCACCCTGCCGTGTCACA
AATTTCCTCCATGGCGTGTCACACACTCTAAACCCTGTCA
Found at i:24251359 original size:23 final size:23
Alignment explanation
Indices: 24251333--24251388 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
24251323 CACACCCGTG
* * *
24251333 TCACATATTCTCACCGTGTCGTC
1 TCACAAATTCACACCCTGTCGTC
* * *
24251356 TCACACATTAACACCCTGTCGTG
1 TCACAAATTCACACCCTGTCGTC
24251379 TCACAAATTC
1 TCACAAATTC
24251389 CCTCCATGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.34, G:0.11, T:0.30
Consensus pattern (23 bp):
TCACAAATTCACACCCTGTCGTC
Found at i:24251483 original size:23 final size:23
Alignment explanation
Indices: 24251434--24251485 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
24251424 GTCACACCCG
* * *
24251434 TCACACATTATCACTATGTCGTT
1 TCACACATTATCACCATGCCGTC
* *
24251457 TCACACATTATGACCCTGCCGTC
1 TCACACATTATCACCATGCCGTC
24251480 TCACAC
1 TCACAC
24251486 GTTCTGTCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.35, G:0.10, T:0.31
Consensus pattern (23 bp):
TCACACATTATCACCATGCCGTC
Done.