Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 115 of 186
Found at i:38167651 original size:41 final size:41
Alignment explanation
Indices: 38167571--38167723 Score: 216
Period size: 41 Copynumber: 3.7 Consensus size: 41
38167561 ATAAAAAACT
* * * * *
38167571 GGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACC
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
* *
38167612 GGCACAAAGCCTGCTAGACATAAAGTCTGATATAATTCACC
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
38167653 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
* * *
38167694 AGCATAAAGCTTGCTAGGCATAAAGCCTGA
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGA
38167724 ACTTACAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (41 bp):
GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
Found at i:38168815 original size:13 final size:13
Alignment explanation
Indices: 38168797--38168821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38168787 AAACGATAAA
38168797 ATTTTCACACAAC
1 ATTTTCACACAAC
38168810 ATTTTCACACAA
1 ATTTTCACACAA
38168822 GTAAATTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTTTCACACAAC
Found at i:38184493 original size:27 final size:27
Alignment explanation
Indices: 38184463--38184640 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
38184453 ATATTGAGTC
* *
38184463 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38184490 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38184517 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** *
38184545 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
* **
38184572 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
38184599 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38184626 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38184641 GTACAATTCA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38184604 original size:82 final size:81
Alignment explanation
Indices: 38184484--38184638 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
38184474 TGCTATATAA
* *
38184484 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38184549 CACTTAGTGTCGCATGG
65 CACTTAGTGTCGCATGG
* * **
38184566 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38184630 CACTTAGTG
65 CACTTAGTG
38184639 CTGTACAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGTCGCATGG
Found at i:38184652 original size:82 final size:83
Alignment explanation
Indices: 38184463--38184652 Score: 214
Period size: 82 Copynumber: 2.3 Consensus size: 83
38184453 ATATTGAGTC
* * * * *
38184463 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
38184527 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* **
38184545 CGCACACTTAGTG-TCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACA
1 CGCACACTTAGTGCT-GTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACA
38184605 CTTAGTGCAACATAGTCAAA-T
62 CTTAGTGCAACATAGTCAAACT
38184626 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
38184653 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:38189571 original size:15 final size:16
Alignment explanation
Indices: 38189546--38189575 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38189536 TTCAAGTTAA
38189546 GATGATGAAGGAAGAT
1 GATGATGAAGGAAGAT
38189562 GATG-TGAAGGAAGA
1 GATGATGAAGGAAGA
38189576 AGAAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (16 bp):
GATGATGAAGGAAGAT
Found at i:38192484 original size:20 final size:21
Alignment explanation
Indices: 38192447--38192487 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38192437 GCTTAAACTA
38192447 TCTATTTGGGGTATTAATTTG
1 TCTATTTGGGGTATTAATTTG
38192468 TCTATTTGGGG-ATTAATTTG
1 TCTATTTGGGGTATTAATTTG
38192488 AAAAGTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (21 bp):
TCTATTTGGGGTATTAATTTG
Found at i:38194196 original size:49 final size:49
Alignment explanation
Indices: 38194093--38194200 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
38194083 TTGTTGTGTG
* * *
38194093 TCAGTGTAAGACTTGTCTGGGACATGGCATCGACACTGATAGATGAGAG
1 TCAGTGTAAGACTTGTCTGGGACAAGGCATCGACACTGATAGATGAAAA
* * ** *
38194142 CCAGTGTAAGA-TCTGTTTGGGACAAGGCATCGACTTTGATATATGAAAA
1 TCAGTGTAAGACT-TGTCTGGGACAAGGCATCGACACTGATAGATGAAAA
38194191 TCAGTGTAAG
1 TCAGTGTAAG
38194201 TCCTGTCTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 48 0.98
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (49 bp):
TCAGTGTAAGACTTGTCTGGGACAAGGCATCGACACTGATAGATGAAAA
Found at i:38201000 original size:78 final size:78
Alignment explanation
Indices: 38200898--38201060 Score: 242
Period size: 78 Copynumber: 2.1 Consensus size: 78
38200888 TGAAAATTTC
* * * ** *
38200898 GTGAGCTAA-TTTATTGTTTGAATGCTTAATTTGATAAAAAGGACTAAATCGTGTAAATTTCAAA
1 GTGAGGTAATTTTACTGTTTCAATGCTTAATTTGATAAAAAGGACTAAATCAAGTAAATTACAAA
38200962 AGTGCTATTCTAT
66 AGTGCTATTCTAT
38200975 GTGAGGTAATTTTACTGTTTCAATGCTTAATTTGATAAAAAGGACTAAATCAAGTAAATTACAAA
1 GTGAGGTAATTTTACTGTTTCAATGCTTAATTTGATAAAAAGGACTAAATCAAGTAAATTACAAA
*
38201040 AGTGCTTTTCTAT
66 AGTGCTATTCTAT
38201053 -T-AGGTAAT
1 GTGAGGTAAT
38201061 GGTGTTAAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
76 7 0.09
77 9 0.12
78 62 0.79
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (78 bp):
GTGAGGTAATTTTACTGTTTCAATGCTTAATTTGATAAAAAGGACTAAATCAAGTAAATTACAAA
AGTGCTATTCTAT
Found at i:38201476 original size:81 final size:81
Alignment explanation
Indices: 38201358--38201519 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 81
38201348 TCTACATTTT
* *
38201358 TGAGATCGTTGTAATTAGGTCTAGCTAGCCTAGGGACTAATTTGCAAAACTGTTAAAGATTTTGA
1 TGAGATCGTTGTAATTAGGTCTAGCTAGCCCAGGGACTAATTTGCAAAACTGGTAAAGATTTTGA
*
38201423 ATGATGCCATTGTTGA
66 ATGATGACATTGTTGA
* *
38201439 TGAGATCGTTGTAGTTAGGTCTAGCTAGCCCAGGGACTAATTTGCAAAATTGGTAAAGATTTTGA
1 TGAGATCGTTGTAATTAGGTCTAGCTAGCCCAGGGACTAATTTGCAAAACTGGTAAAGATTTTGA
38201504 ATGATGACATTGTTGA
66 ATGATGACATTGTTGA
38201520 ATACATGTGT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.34
Consensus pattern (81 bp):
TGAGATCGTTGTAATTAGGTCTAGCTAGCCCAGGGACTAATTTGCAAAACTGGTAAAGATTTTGA
ATGATGACATTGTTGA
Found at i:38210004 original size:43 final size:41
Alignment explanation
Indices: 38209873--38210027 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 41
38209863 CTAAGACTAT
* *
38209873 GTGTAAGACCATATCTGGGATATGGCATCAGTATGAGACTTC
1 GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGA-TTC
* * * * *
38209915 GTGTAAAACCATATCTAGGATATGGTATCGATATGAGATTTC
1 GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGA-TTC
* *
38209957 GTGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATTAC
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATATGAGATT-C
*
38210000 GTGTAAGACCACAGCTGGGATATGGCAT
1 GTGTAAGACCATAGCTGGGATATGGCAT
38210028 TGGTATGATA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 62 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGATTC
Found at i:38210035 original size:85 final size:84
Alignment explanation
Indices: 38209873--38210027 Score: 204
Period size: 85 Copynumber: 1.8 Consensus size: 84
38209863 CTAAGACTAT
* * * * *
38209873 GTGTAAGACCATATCTGGGATATGGCATCAGTATGAGACTTCGTGTAAAACCATATCTAGGATAT
1 GTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCGTGTAAAACCACAGCTAGGATAT
*
38209938 GGTATCGATATGAGATTTC
66 GGCATCGATATGAGATTTC
* * *
38209957 GTGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGA-TTACGTGTAAGACCACAGCTGGGAT
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTT-CGTGTAAAACCACAGCTAGGAT
38210021 ATGGCAT
64 ATGGCAT
38210028 TGGTATGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
84 22 0.37
85 38 0.63
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCGTGTAAAACCACAGCTAGGATAT
GGCATCGATATGAGATTTC
Found at i:38210046 original size:85 final size:83
Alignment explanation
Indices: 38209872--38210046 Score: 181
Period size: 85 Copynumber: 2.1 Consensus size: 83
38209862 ACTAAGACTA
* * * * *
38209872 TGTGTAAGACCATATCTGGGATATGGCATCAGTATGAGACTTCGTGTAAAACCATATCTAGGATA
1 TGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCGTGTAAAACCACAGCTAGGATA
* **
38209937 TGGTATCGATATGAGATT
66 TGGCATCGATATGAGACG
* * *
38209955 TCGTGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGA-TTACGTGTAAGACCACAGCTGGG
1 T-GTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTT-CGTGTAAAACCACAGCTAGG
* * *
38210019 ATATGGCATTGGTATGATACCG
63 ATATGGCATCGATATGAGA-CG
38210041 TGTGTA
1 TGTGTA
38210047 CGGAACTCCC
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
83 1 0.01
84 22 0.30
85 50 0.68
86 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (83 bp):
TGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTTCGTGTAAAACCACAGCTAGGATA
TGGCATCGATATGAGACG
Found at i:38210340 original size:14 final size:14
Alignment explanation
Indices: 38210321--38210350 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38210311 AGGAACTTGC
38210321 TAAGCTTTAAAGCT
1 TAAGCTTTAAAGCT
38210335 TAAGCTTTAAAGCT
1 TAAGCTTTAAAGCT
38210349 TA
1 TA
38210351 CTCCCCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (14 bp):
TAAGCTTTAAAGCT
Found at i:38210530 original size:88 final size:88
Alignment explanation
Indices: 38210377--38210551 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 88
38210367 TTTGTCTTAT
* * * ** * *
38210377 AGTGTCACCAAGCTAGCTCGAGGATCAGTGACTGTTGGAGATTTAGTCACACTATTAACTAATTA
1 AGTGTCACCAAGCTAGCTCGAGGATCAGAGACTATCGGAGACCTACTCACACTATCAACTAATTA
*
38210442 TTTTGGGTACCAATGAATTTGAC
66 TTTTAGGTACCAATGAATTTGAC
* * * *
38210465 AGTGTCACCAAGCTAGCTCGAGGTTCGGAGACTATCGGAGACCTACTCACAGTATCAACTGATTA
1 AGTGTCACCAAGCTAGCTCGAGGATCAGAGACTATCGGAGACCTACTCACACTATCAACTAATTA
*
38210530 TTTTAGGTACCAATGATTTTGA
66 TTTTAGGTACCAATGAATTTGA
38210552 GTTATGGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (88 bp):
AGTGTCACCAAGCTAGCTCGAGGATCAGAGACTATCGGAGACCTACTCACACTATCAACTAATTA
TTTTAGGTACCAATGAATTTGAC
Found at i:38210987 original size:74 final size:74
Alignment explanation
Indices: 38210862--38211010 Score: 262
Period size: 74 Copynumber: 2.0 Consensus size: 74
38210852 TGTAGGTATG
*
38210862 TGAAAAAGGGTGACAAAATGGCTTGATAAATAGCCTTGTTTTTGTCCACAGGGGTAGACACACGG
1 TGAAAAAGGGTGACAAAATGGCTAGATAAATAGCCTTGTTTTTGTCCACAGGGGTAGACACACGG
*
38210927 GTGTGTGTC
66 GCGTGTGTC
* *
38210936 TGAAAAAGGGTGACAAAATGGCTAGGTAAATAGCCTTGTTTTTGTCTACAGGGGTAGACACACGG
1 TGAAAAAGGGTGACAAAATGGCTAGATAAATAGCCTTGTTTTTGTCCACAGGGGTAGACACACGG
38211001 GCGTGTGTC
66 GCGTGTGTC
38211010 T
1 T
38211011 AGCCCGTGTC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (74 bp):
TGAAAAAGGGTGACAAAATGGCTAGATAAATAGCCTTGTTTTTGTCCACAGGGGTAGACACACGG
GCGTGTGTC
Found at i:38213188 original size:13 final size:13
Alignment explanation
Indices: 38213170--38213196 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38213160 CAATTAGAGT
38213170 GTCAAACCCCTTA
1 GTCAAACCCCTTA
38213183 GTCAAACCCCTTA
1 GTCAAACCCCTTA
38213196 G
1 G
38213197 GAAAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.11, T:0.22
Consensus pattern (13 bp):
GTCAAACCCCTTA
Found at i:38217383 original size:12 final size:12
Alignment explanation
Indices: 38217366--38217393 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38217356 TTGTACCGAG
38217366 GTAAGTTTGTAT
1 GTAAGTTTGTAT
38217378 GTAAGTTTGTAT
1 GTAAGTTTGTAT
38217390 GTAA
1 GTAA
38217394 ATAATGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (12 bp):
GTAAGTTTGTAT
Found at i:38217687 original size:43 final size:41
Alignment explanation
Indices: 38217555--38217709 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
38217545 CTGAGACTCT
** *
38217555 GTGTAAGACCATATCTGGGATATGGCATCAGCATTAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCAATATAAGA-TTC
* * * *
38217597 GTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCAATATAAGA-TTC
* *
38217639 GTGTAAGACCATAGCTGGGCTATTGGCATCAATATAAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCAATATAAGATT-C
* *
38217682 ATGTAAGATCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
38217710 TGGTATGCCT
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 62 0.66
43 32 0.34
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCAATATAAGATTC
Found at i:38217703 original size:85 final size:84
Alignment explanation
Indices: 38217554--38217709 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
38217544 GCTGAGACTC
* * * *
38217554 TGTGTAAGACCATATCTGGGATATGGCATCAGCATTAGACTTCGTGTAAGACCATATCTAGGATA
1 TGTGTAAGACCATAGCTGGGATATGGCATCAACATAAGACTTCATGTAAGACCATATCTAGGATA
38217619 TGGCATCGATATGAGATTT
66 TGGCATCGATATGAGATTT
* * * *
38217638 TGTGTAAGACCATAGCTGGGCTATTGGCATCAATATAAGA-TTACATGTAAGATCATATCTGGGA
1 TGTGTAAGACCATAGCTGGGATA-TGGCATCAACATAAGACTT-CATGTAAGACCATATCTAGGA
38217702 TATGGCAT
64 TATGGCAT
38217710 TGGTATGCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 23 0.37
85 39 0.63
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (84 bp):
TGTGTAAGACCATAGCTGGGATATGGCATCAACATAAGACTTCATGTAAGACCATATCTAGGATA
TGGCATCGATATGAGATTT
Found at i:38220457 original size:56 final size:56
Alignment explanation
Indices: 38220371--38220490 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38220361 ACAAGGGATG
38220371 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
38220427 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38220483 ATGGGCAA
1 ATGGGCAA
38220491 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:38224525 original size:40 final size:40
Alignment explanation
Indices: 38224468--38224610 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 40
38224458 ATTTGAATAC
* *
38224468 ATCCGGGCTAAGCCCCGAAGGCATTTATGCT-AG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTATG-TAAGTTGA-TAT
*
38224508 ATCCGGGCTAAGACCCGAAGGCATTTGTGTAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGTAAGTTGATAT
** ** *
38224548 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGTAAGTTGATAT
* *
38224588 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
38224611 ATTGTGCTTG
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 88 0.96
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGTAAGTTGATAT
Found at i:38224601 original size:80 final size:80
Alignment explanation
Indices: 38224468--38224616 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
38224458 ATTTGAATAC
* * * * * * *
38224468 ATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAAT
38224533 TGTGTAAGTTGATAT
66 TGTGTAAGTTGATAT
* *
38224548 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAA
38224612 TTGTG
65 TTGTG
38224617 CTTGTGGTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 57 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAAT
TGTGTAAGTTGATAT
Found at i:38224629 original size:80 final size:80
Alignment explanation
Indices: 38224468--38224637 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
38224458 ATTTGAATAC
* * * * * * *
38224468 ATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAAT
*
38224533 TGTGTAAGTTGATAT
66 TGTGTAAGTGGATAT
* *
38224548 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAA
* *
38224612 TTGTGCT-TGTGGTTAT
65 TTGTG-TAAGTGGATAT
38224628 ATCC-GGCTAA
1 ATCCGGGCTAA
38224638 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 6 0.08
80 67 0.88
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAAT
TGTGTAAGTGGATAT
Found at i:38227842 original size:67 final size:67
Alignment explanation
Indices: 38227717--38227850 Score: 178
Period size: 67 Copynumber: 2.0 Consensus size: 67
38227707 GCCTCCGAGA
* * * * *
38227717 AATATTATTGAGGTTCGGAGCTTCCTGGGGCTCGCCGGTTATTACCGACGATTTGTAAAAGGTTT
1 AATATTATTGAGGTTCGGAGCTTCCTGGGACTCGCCGCTTACTACAGACGATTCGTAAAAGGTTT
38227782 CT
66 CT
** * * *
38227784 AATATTATTGAGGTTCGGAGCTTTTTGGGACTTGCCGCTTACTACAGACGGTTCGTAAAGGGTTT
1 AATATTATTGAGGTTCGGAGCTTCCTGGGACTCGCCGCTTACTACAGACGATTCGTAAAAGGTTT
38227849 CT
66 CT
38227851 CGATGATAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (67 bp):
AATATTATTGAGGTTCGGAGCTTCCTGGGACTCGCCGCTTACTACAGACGATTCGTAAAAGGTTT
CT
Found at i:38232280 original size:40 final size:40
Alignment explanation
Indices: 38232223--38233172 Score: 1776
Period size: 40 Copynumber: 23.8 Consensus size: 40
38232213 ATTTGAATAC
* * * *
38232223 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
38232263 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232303 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232343 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232383 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232423 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232463 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232503 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232543 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232583 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232623 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232663 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232703 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232743 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232783 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232823 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232863 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232903 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232943 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38232983 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
38233023 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
38233063 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
38233103 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
38233143 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
38233173 TTGTGGTTAT
Statistics
Matches: 896, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
40 893 1.00
41 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:38236988 original size:12 final size:12
Alignment explanation
Indices: 38236971--38236995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38236961 TATCCCTATT
38236971 CAAGACTAATAA
1 CAAGACTAATAA
38236983 CAAGACTAATAA
1 CAAGACTAATAA
38236995 C
1 C
38236996 GTCTAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (12 bp):
CAAGACTAATAA
Found at i:38245059 original size:12 final size:12
Alignment explanation
Indices: 38245042--38245066 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38245032 TATCCCTATT
38245042 CAAGACTAATAA
1 CAAGACTAATAA
38245054 CAAGACTAATAA
1 CAAGACTAATAA
38245066 C
1 C
38245067 GTCTAATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (12 bp):
CAAGACTAATAA
Found at i:38245375 original size:12 final size:12
Alignment explanation
Indices: 38245358--38245382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38245348 TATCCCTATT
38245358 CAAGACTAATAA
1 CAAGACTAATAA
38245370 CAAGACTAATAA
1 CAAGACTAATAA
38245382 C
1 C
38245383 GTCTAATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (12 bp):
CAAGACTAATAA
Found at i:38245479 original size:316 final size:316
Alignment explanation
Indices: 38244906--38245537 Score: 1194
Period size: 316 Copynumber: 2.0 Consensus size: 316
38244896 ATTGCTTTTG
*
38244906 TGAAAATTGATTGAATTAAGACAATACCTAAGGAAAAATCCATCTAGACTGTACTTGTTATTCTG
1 TGAAAATTGATTGAATTAAGACAATACCTAAGGAAAAATCCATCTAGACTGTACTTGTTATTCTA
* *
38244971 GCTCTGAATCAGACGATTTATTCATTTAACTTGTTCCGTAGAGATCCCTAAGTTATGTTATTATC
66 GCTCCGAATCAGACGATTTATTCATTTAACTTGTTCCGTAGAGATCCCTAAATTATGTTATTATC
38245036 CCTATTCAAGACTAATAACAAGACTAATAACGTCTAATCTCTAGATTGAATAATTGAGACCTTTC
131 CCTATTCAAGACTAATAACAAGACTAATAACGTCTAATCTCTAGATTGAATAATTGAGACCTTTC
38245101 TCTAATTAACACCCTAAGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAA
196 TCTAATTAACACCCTAAGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAA
38245166 TCCAATAAAATCTTGTCACCCTATGTCTAGGCGCGCAAACAAATCCGCTTAATTAT
261 TCCAATAAAATCTTGTCACCCTATGTCTAGGCGCGCAAACAAATCCGCTTAATTAT
38245222 TGAAAATTGATTGAATTAAGACAATACCTAAGGAAAAATCCA-CTTAGACTGTACTTGTTATTCT
1 TGAAAATTGATTGAATTAAGACAATACCTAAGGAAAAATCCATC-TAGACTGTACTTGTTATTCT
* * *
38245286 AGCTCCGAATCGGATGATTTATTCATTTAACTTGTTCTGTAGAGATCCCTAAATTATGTTATTAT
65 AGCTCCGAATCAGACGATTTATTCATTTAACTTGTTCCGTAGAGATCCCTAAATTATGTTATTAT
38245351 CCCTATTCAAGACTAATAACAAGACTAATAACGTCTAATCTCTAGATTGAATAATTGAGACCTTT
130 CCCTATTCAAGACTAATAACAAGACTAATAACGTCTAATCTCTAGATTGAATAATTGAGACCTTT
38245416 CTCTAATTAACACCCTAAGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTA
195 CTCTAATTAACACCCTAAGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTA
38245481 ATCCAATAAAATCTTGTCACCCTATGTCTAGGCGCGCAAACAAATCCGCTTAATTAT
260 ATCCAATAAAATCTTGTCACCCTATGTCTAGGCGCGCAAACAAATCCGCTTAATTAT
38245538 GACAAATGTA
Statistics
Matches: 309, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
315 1 0.00
316 308 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (316 bp):
TGAAAATTGATTGAATTAAGACAATACCTAAGGAAAAATCCATCTAGACTGTACTTGTTATTCTA
GCTCCGAATCAGACGATTTATTCATTTAACTTGTTCCGTAGAGATCCCTAAATTATGTTATTATC
CCTATTCAAGACTAATAACAAGACTAATAACGTCTAATCTCTAGATTGAATAATTGAGACCTTTC
TCTAATTAACACCCTAAGGTTGCATTAACTCGATCTATGGATCCCCTTATTAGGTTTCACCCTAA
TCCAATAAAATCTTGTCACCCTATGTCTAGGCGCGCAAACAAATCCGCTTAATTAT
Found at i:38245819 original size:67 final size:67
Alignment explanation
Indices: 38245692--38245824 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
38245682 CAAGATTCAT
38245692 CTTAAGTTTCATTCCCCTTAGGTATTTAGGAAATTTAGTTCATAACTAAATAAGAAAACATCTCA
1 CTTAAGTTTCATTCCCCTTAGGTATTTAGG-AATTTAGTTCATAACTAAATAAGAAAACATCTCA
38245757 GGC
65 GGC
* * **
38245760 CTTAGGTTTCATTCCCCTTAGGTATTTAAGG-GTTTTTTTCATAACTAAATAAGAAAACATCTCA
1 CTTAAGTTTCATTCCCCTTAGGTATTT-AGGAATTTAGTTCATAACTAAATAAGAAAACATCTCA
38245824 G
65 G
38245825 AATAATAACG
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 31 0.52
68 26 0.43
69 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (67 bp):
CTTAAGTTTCATTCCCCTTAGGTATTTAGGAATTTAGTTCATAACTAAATAAGAAAACATCTCAG
GC
Found at i:38251920 original size:33 final size:33
Alignment explanation
Indices: 38251878--38251944 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
38251868 AACAATATGT
* *
38251878 CCCAAAAATCTAACCTCTTGGAGCCAAAATTCA
1 CCCAAAAATCCAACCTCTTAGAGCCAAAATTCA
38251911 CCCAAAAATCCAACCTCTTAGAGCCAAAATTCA
1 CCCAAAAATCCAACCTCTTAGAGCCAAAATTCA
38251944 C
1 C
38251945 ATTTACTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (33 bp):
CCCAAAAATCCAACCTCTTAGAGCCAAAATTCA
Found at i:38264898 original size:13 final size:13
Alignment explanation
Indices: 38264880--38264918 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
38264870 ATATTATAAT
*
38264880 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
38264893 TATTTTATGCTAA
1 TATTTTATGTTAA
38264906 TAATTTTATGTTA
1 T-ATTTTATGTTA
38264919 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:38266402 original size:40 final size:40
Alignment explanation
Indices: 38266355--38266519 Score: 226
Period size: 40 Copynumber: 4.2 Consensus size: 40
38266345 GACTAAGATT
*
38266355 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* * * *
38266395 CAAAGGCATTCGTGCGAGTTACTATATCCGGGGTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* * *
38266435 CGAAGGCAATTGTGCTAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
*
38266475 CGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
38266514 CGAAGG
1 CGAAGG
38266520 TACTTGGGTT
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 15 0.14
40 94 0.85
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:38266490 original size:80 final size:79
Alignment explanation
Indices: 38266355--38266519 Score: 258
Period size: 80 Copynumber: 2.1 Consensus size: 79
38266345 GACTAAGATT
*
38266355 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTAT
1 CGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTAT
* *
38266420 ATCCGGGGTAAGTCC
66 ATCC-GGCTAAATCC
* * * *
38266435 CGAAGGCAATTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTAT
1 CGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTAT
38266500 ATCCGGCTAAATCC
66 ATCCGGCTAAATCC
38266514 CGAAGG
1 CGAAGG
38266520 TACTTGGGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 14 0.18
80 64 0.82
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTAT
ATCCGGCTAAATCC
Found at i:38269617 original size:50 final size:49
Alignment explanation
Indices: 38269562--38269659 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 49
38269552 CCGTCCAGCT
* *
38269562 CAAATAAATTTTGGGTCTAATTTCCTTTTAAATCCTTTCTCATTAGACNC
1 CAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGAC-C
38269612 CAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGAC
1 CAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGAC
38269660 ACTTAAGCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.41
Consensus pattern (49 bp):
CAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGACC
Found at i:38271853 original size:46 final size:45
Alignment explanation
Indices: 38271816--38271933 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 45
38271806 CATATATATC
* *
38271816 TTGCATTAGCTATTTGGCTTTACCACATATCCATCTCATACACGTT
1 TTGCATTAGCCATTCGGCTTTACCACATATCCATCTCATACACG-T
*
38271862 TTGCATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGT
1 TTGCATTAGCCATTCGGCTTTACCACATATCCATCTCATACACGT
38271907 TTCGCATTAGCCATTCGGCTTTACCAC
1 TT-GCATTAGCCATTCGGCTTTACCAC
38271934 TTATATACAC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 3 0.04
46 64 0.96
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (45 bp):
TTGCATTAGCCATTCGGCTTTACCACATATCCATCTCATACACGT
Found at i:38271982 original size:22 final size:22
Alignment explanation
Indices: 38271954--38272029 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
38271944 TTCCACGTTC
38271954 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
38271976 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
38272000 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
38272023 ATCACAT
1 ATCACAT
38272030 ATATGCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:38271986 original size:47 final size:47
Alignment explanation
Indices: 38271911--38272477 Score: 821
Period size: 47 Copynumber: 12.1 Consensus size: 47
38271901 ACACGTTTCG
* * * * * * *
38271911 CATTAGCCATTCGGCTTTACCACTTATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
38271958 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38272005 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
38272052 TATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38272099 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
38272146 TATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38272193 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
38272240 TATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
38272287 CTTTGGCCACTCGGCCTTATCACACATATGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
38272334 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
38272381 CATTGACCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* ** * * **
38272428 CATTTGCCATTCGGAATTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
38272475 CAT
1 CAT
38272478 AAAATCCTAA
Statistics
Matches: 473, Mismatches: 46, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
46 1 0.00
47 472 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:38276002 original size:13 final size:13
Alignment explanation
Indices: 38275984--38276009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38275974 ATATTATAAT
38275984 TATTTTATGTTAA
1 TATTTTATGTTAA
38275997 TATTTTATGTTAA
1 TATTTTATGTTAA
38276010 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:38277982 original size:53 final size:53
Alignment explanation
Indices: 38277826--38277991 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
38277816 GACGAAAAAT
* **
38277826 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
*
38277878 ATGTGATAATGTGACTCCATATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
38277931 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
38277985 TATGTGA
1 -ATGTGA
38277992 ACCGTGTAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 79 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:38280124 original size:40 final size:40
Alignment explanation
Indices: 38280076--38280441 Score: 662
Period size: 40 Copynumber: 9.2 Consensus size: 40
38280066 GGACTAAGAT
* *
38280076 CCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280116 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280156 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280196 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280236 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280276 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280316 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
38280356 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
38280396 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
38280435 CCGAAGG
1 CCGAAGG
38280442 TACTTGGGTT
Statistics
Matches: 317, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 15 0.05
40 302 0.95
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:38282916 original size:7 final size:6
Alignment explanation
Indices: 38282889--38282914 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38282879 TATTTTTTCC
38282889 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
38282915 TCAAAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:38285062 original size:40 final size:41
Alignment explanation
Indices: 38284927--38285112 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
38284917 TACTCGAATG
*
38284927 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
38284968 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
38285009 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
38285049 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* * *
38285089 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38285113 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 61 0.47
41 67 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:38285072 original size:81 final size:82
Alignment explanation
Indices: 38284929--38285082 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
38284919 CTCGAATGAT
* * *
38284929 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCAAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCAAAGGCAT
*
38284994 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
*
38285011 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCAAAGGCA
38285074 TTTATGCTA
65 TTTATGCTA
38285083 GTGACCATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 38 0.58
82 27 0.41
83 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCAAAGGCAT
TTATGCTAAGCGACTAC
Found at i:38286098 original size:122 final size:122
Alignment explanation
Indices: 38285876--38286124 Score: 480
Period size: 122 Copynumber: 2.0 Consensus size: 122
38285866 CTGACAGCAG
*
38285876 CAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTAT
1 CAGTAATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTAT
38285941 GTAAACGAACCTTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGGA
66 GTAAACGAACCTTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGGA
38285998 CAGTAATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTAT
1 CAGTAATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTAT
*
38286063 GTAAACGAACCTTGATGAATCTATTTTCATAGGAAAGTAACGAAATGATCATATGGA
66 GTAAACGAACCTTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGGA
38286120 CAGTA
1 CAGTA
38286125 TGTTAAGAGA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 125 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (122 bp):
CAGTAATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTAT
GTAAACGAACCTTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGGA
Found at i:38286945 original size:402 final size:402
Alignment explanation
Indices: 38286201--38287003 Score: 1428
Period size: 402 Copynumber: 2.0 Consensus size: 402
38286191 TTGGAAATTC
*
38286201 ATTATAAATTAACCAGAGATAATTAGGAGTCATTCCATATATGTATAGATTCCTCTCTGAGTCTA
1 ATTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTA
* *
38286266 GTTTCTATAGAAACAAACGGCATCAGTATTGAAGCTTTTTGCAGGGAGATATCCAAATCGTAATG
66 GTTTCTATAGAAACAAACAGCATCAGTATTGAAGCTTGTTGCAGGGAGATATCCAAATCGTAATG
*
38286331 CATGAAGATCAGTGTAGTCGATCCCTGTAACAGGGGAGAATTTGAATAATAAACTGTAGTAATTG
131 CATGAAGATCAGTGTAGTCGATCCCTGTAACAGGGGAGAATTTGAATAATAAACTGTACTAATTG
* * *
38286396 GCCCGACCAAAAATTCTAGAAAAACATTTGTAGATGACTATATGAGTCTAGTTTCAGGGAAAAAT
196 GCCCGACAAAAAATTCTAGAAAAAAATTTGTAGATGACTATATGAGTATAGTTTCAGGGAAAAAT
*
38286461 CACGAAGCTGATTTTGGAGTTGTGAAACTCAAGATATGATTTTTAAGGTGACAGTGACGCAGTTA
261 CACGAAGCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTAAGGTGACAGTGACGCAGTTA
*
38286526 GCCAGCTTGCCTGGAAAATTTTAAATGGATTGTGCAAAGAAGTGATTTAAGTCTGCAAACCCCTC
326 GCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGTGATTTAAGTCTGCAAACCCCTC
38286591 GTGTCCGACTCA
391 GTGTCCGACTCA
*
38286603 ATTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATTTATAGATTCCTCTCTGAGTCTA
1 ATTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTA
38286668 GTTTCTATAGAAACAAACAGCATCAGTATTGAAGCTCTGTT-CAGGGAGATATCCAAATCGTAAT
66 GTTTCTATAGAAACAAACAGCATCAGTATTGAAGCT-TGTTGCAGGGAGATATCCAAATCGTAAT
* * *
38286732 GCATGAAGGTCAGTGTAGTCGATCCCTGTAACAGGGGAGACTTTGACTAATAAACTGTACTAATT
130 GCATGAAGATCAGTGTAGTCGATCCCTGTAACAGGGGAGAATTTGAATAATAAACTGTACTAATT
** *
38286797 GGCCTTACAAAAAATTCTAGAAAAAAATTTGTAGATGCCTATATGAGTATAGTTTCAGGGAAAAA
195 GGCCCGACAAAAAATTCTAGAAAAAAATTTGTAGATGACTATATGAGTATAGTTTCAGGGAAAAA
38286862 TCACGAAGCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTAAGGTGACAGTGACGCAGTT
260 TCACGAAGCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTAAGGTGACAGTGACGCAGTT
* *
38286927 AGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCGAAGAAGTGATTTATGTCTGCAAACCCCT
325 AGCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGTGATTTAAGTCTGCAAACCCCT
38286992 CGTGTCCGACTC
390 CGTGTCCGACTC
38287004 CGGCGACGGA
Statistics
Matches: 382, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
402 379 0.99
403 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (402 bp):
ATTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTA
GTTTCTATAGAAACAAACAGCATCAGTATTGAAGCTTGTTGCAGGGAGATATCCAAATCGTAATG
CATGAAGATCAGTGTAGTCGATCCCTGTAACAGGGGAGAATTTGAATAATAAACTGTACTAATTG
GCCCGACAAAAAATTCTAGAAAAAAATTTGTAGATGACTATATGAGTATAGTTTCAGGGAAAAAT
CACGAAGCTGATTTTCGAGTTGTGAAACTCAAGATATGATTTTTAAGGTGACAGTGACGCAGTTA
GCCAGCTTGCCTGGAAAATTTAAAATGGATTGTGCAAAGAAGTGATTTAAGTCTGCAAACCCCTC
GTGTCCGACTCA
Found at i:38290815 original size:46 final size:48
Alignment explanation
Indices: 38290765--38290888 Score: 189
Period size: 46 Copynumber: 2.6 Consensus size: 48
38290755 TACGAGTGCC
* *
38290765 AGTGTAAGACATGTCTGGGACATGCATCGGCATTTAGATA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATATACGAGCT
*
38290811 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATATACGAGCT
*
38290859 AGTGTAAGACCTGTCTGGGACATGGCATCA
1 AGTGTAAGACATGTCTGGGACAT-GCATCA
38290889 ACACCGATAG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 37 0.52
47 1 0.01
48 27 0.38
49 6 0.08
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATATACGAGCT
Found at i:38290915 original size:49 final size:46
Alignment explanation
Indices: 38290762--38290923 Score: 157
Period size: 46 Copynumber: 3.4 Consensus size: 46
38290752 CATTACGAGT
* **
38290762 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-TTTAGATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGATAGAT-AGA
* * *
38290808 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CTTGAGATATACGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCAC--GATAGATA-GA
* * *
38290856 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCA-CGATAGAT-AGA
*
38290905 GCCAGTGTAAGACCTGTCT
1 GCCAGTGTAAGACATGTCT
38290924 AAGACACGAC
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
46 32 0.33
47 1 0.01
48 30 0.31
49 32 0.33
50 1 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGATAGATAGA
Found at i:38290986 original size:49 final size:49
Alignment explanation
Indices: 38290859--38290988 Score: 125
Period size: 49 Copynumber: 2.7 Consensus size: 49
38290849 TATACGAGCT
* ** *
38290859 AGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGCC
1 AGTGTAAAACCTGTCTGGGACATGGCATTGACACCGATAGATGAAAGCC
* ** * * * * * * *
38290908 AGTGTAAGACCTGTCTAAGACACGACATTGGCCCCGGTATATGAAAGTC
1 AGTGTAAAACCTGTCTGGGACATGGCATTGACACCGATAGATGAAAGCC
*
38290957 AGTTTAAAACCTGTCTGGGACATGGCATTGAC
1 AGTGTAAAACCTGTCTGGGACATGGCATTGAC
38290989 CTTGATATGC
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
AGTGTAAAACCTGTCTGGGACATGGCATTGACACCGATAGATGAAAGCC
Found at i:38291526 original size:45 final size:45
Alignment explanation
Indices: 38291477--38291567 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
38291467 TAGCCTAAGA
38291477 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
1 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
38291522 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
1 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
38291567 A
1 A
38291568 ATTTAATCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (45 bp):
ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
Found at i:38291558 original size:13 final size:13
Alignment explanation
Indices: 38291536--38291568 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38291526 AAGGGCTTGT
38291536 TTAT-TAAACTAA
1 TTATCTAAACTAA
38291548 TTATCTAAACTAA
1 TTATCTAAACTAA
*
38291561 TTAACTAA
1 TTATCTAA
38291569 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:38294497 original size:13 final size:13
Alignment explanation
Indices: 38294468--38294501 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
38294458 TCTTTATAAC
*
38294468 AAAAAATAAACAT
1 AAAAAATAAAAAT
38294481 -AAAAATAAAAAT
1 AAAAAATAAAAAT
38294493 AAAAAATAA
1 AAAAAATAA
38294502 GAGGATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:38302695 original size:43 final size:43
Alignment explanation
Indices: 38302641--38302726 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
38302631 GATCTATGTG
* *
38302641 GCATCCGAGCTCGTTGAGTGGTTTGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGA
38302684 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGA
38302727 TACATGTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGA
Found at i:38308048 original size:28 final size:28
Alignment explanation
Indices: 38308002--38308097 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
38307992 GACGTCTCAT
* * *
38308002 ACACTAAGTTCCATACTCAACATCTCGC
1 ACACTAAGTGCCATGCTCAATATCTCGC
* * * * *
38308030 ACATTAAGTGTCATTCTCAATGTTTCGC
1 ACACTAAGTGCCATGCTCAATATCTCGC
* *
38308058 ACACTAAGTGCCATGCTTAATATCTCGT
1 ACACTAAGTGCCATGCTCAATATCTCGC
38308086 ACACTAAGTGCC
1 ACACTAAGTGCC
38308098 GTACATAGAC
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (28 bp):
ACACTAAGTGCCATGCTCAATATCTCGC
Found at i:38308156 original size:40 final size:40
Alignment explanation
Indices: 38308086--38308217 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 40
38308076 AATATCTCGT
* * * * *
38308086 ACACTAAGTGCCGTACATAGACGAAACTATCTCGAATCAC
1 ACACTAAGTGCCGTATATAGCCGAAGCTATCTAGAATCGC
** *
38308126 ACACTAAGTGTTGTATATAGCCGAAGCTATCTAGAACCGC
1 ACACTAAGTGCCGTATATAGCCGAAGCTATCTAGAATCGC
* ** * * *
38308166 AGACTAAGTGCCACATTTAGCCGAAGCTATTTTTGAATCGC
1 ACACTAAGTGCCGTATATAGCCGAAGCTA-TCTAGAATCGC
38308207 ACACTAAGTGC
1 ACACTAAGTGC
38308218 TACATTTAGT
Statistics
Matches: 73, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
40 55 0.75
41 18 0.25
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCGTATATAGCCGAAGCTATCTAGAATCGC
Found at i:38314731 original size:20 final size:20
Alignment explanation
Indices: 38314706--38314757 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
38314696 CGGGCTGAGG
*
38314706 ACACGGGCTTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
*
38314726 ACACGGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCAAGCC
38314746 ACACGGGCGTGT
1 ACACGGGCGTGT
38314758 GACTATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.37, G:0.33, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:38322660 original size:495 final size:492
Alignment explanation
Indices: 38321731--38322737 Score: 1687
Period size: 495 Copynumber: 2.0 Consensus size: 492
38321721 GTAAAATGGA
** *
38321731 TTAAAAGACAAATTTTAAACCCCAAATGTGTCCCTTTCTTCTTGCTACAGTAGAATGTACCAAGA
1 TTAAAAGACAAATTTTAAACCCCAAATGTGTCCCTTTCTTCTTGCTACAACAAAATGTACCAAGA
*
38321796 GCAGCCATGGTTAGGGTTTGGCCAAGCTTCCAAGCTTAATAGTAAGTGATTTCGAGCTCCATTTT
66 GCAGCCATGGTTAGGGTTTGGCCAAGCTTCCAAGCTTAACAGTAAGTGATTTCGAGCTCCATTTT
* *
38321861 TAATGTTCTATGTATTTTTGAAATCCTGGTAACATGATCTGCTCATTTCTTCCATTATTTTGAGC
131 TAATGTTCTATGTATTTTTGAAATCCCGGTAACATGATCTGCTCATTTCTACCATTATTTTGAGC
38321926 TAGGATCTACGTTTAAAAATTTACCCATGAATGATATGCATGTATTTTGATGTTTAATGGTAGAA
196 TAGGATCTACGTTTAAAAATTTACCCATGAATGATATGCATGTATTTTGATGTTTAATGGTAGAA
* * * *
38321991 TATGAAGCTTGAAATTGTGTTAAATAACTTTTGCTAAGCGATTTTACGTGGAAACGAGTAGAACG
261 TATGAAGCTTGAAATTGTGTTAAACAACGTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAACG
*
38322056 ACATAATCGGTAAAAATACCTAATGTCCATAAGTACATGTTAGAGTGAGAATTTGATATTGCTAT
326 ACATAATCGGTAAAAATACCTAATGTCCATAAGCACATGTTAGAGTGAGAATTTGATATTGCTAT
*
38322121 AGAAACAAAAAATGACCAGCATGTCATAAAACATAAGGAAATAGGAAGAAGTTTAA-TTTCTGAA
391 AGAAACAAAAAATGACCAGCATGTCATAAAACATAAGAAAATAGGAAGAAGTTTAATTTTC-GAA
*
38322185 CCTTGGGGAAAAAGTGCAAATATGCAAAAGTTTAGGGTG
455 CCTTCGGGAAAAAGTGCAAATATGCAAAAGTTTAGGG-G
38322224 TTAAAAGACAAATTTTAAACCCCAAATGTGTCCCTTTCTTCTTGCTACAACAAAATGTACCAAGA
1 TTAAAAGACAAATTTTAAACCCCAAATGTGTCCCTTTCTTCTTGCTACAACAAAATGTACCAAGA
*
38322289 GCAGCTATGGTTAGGGTTTGGCCAAGCTTCCAAGCTTAACAGTAAGTGA-TTCTGAGCTCCATTT
66 GCAGCCATGGTTAGGGTTTGGCCAAGCTTCCAAGCTTAACAGTAAGTGATTTC-GAGCTCCATTT
*
38322353 TTAATGTTCTATGTATTTTTTTGAAATCCCGGTAATATGATCTGCTCATTTCTACCATTATTTTG
130 TTAATGTTCTATGTA--TTTTTGAAATCCCGGTAACATGATCTGCTCATTTCTACCATTATTTTG
* * *
38322418 AGCTAGGATTTATGTTTAAAAATTTATCCATGAATGATATGCATGTATTTTGATGTTTAATGGTA
193 AGCTAGGATCTACGTTTAAAAATTTACCCATGAATGATATGCATGTATTTTGATGTTTAATGGTA
38322483 GAATATGAAGCTTGAAATTGTGTTAAACAACGTTTGCTAAGCGATTTTACGTGAAAACGAGTAAA
258 GAATATGAAGCTTGAAATTGTGTTAAACAACGTTTGCTAAGCGATTTTACGTGAAAACGAGTAAA
* * *
38322548 ACGACATAATCGGTAAAAATACCTAATGTTCATAAGCACATGTTAGAGTGAGAATTTGATGTTTC
323 ACGACATAATCGGTAAAAATACCTAATGTCCATAAGCACATGTTAGAGTGAGAATTTGATATTGC
** * *
38322613 TATAGAAAGGAAAAATGATCAGCATGTCATAAAACCTAAGAAAATAGGAAGAAGTTTAATTTTCG
388 TATAGAAACAAAAAATGACCAGCATGTCATAAAACATAAGAAAATAGGAAGAAGTTTAATTTTCG
*
38322678 AACCTTCGGGCAAAAGTGCAAATATGCAAAAGTTTAGGGG
453 AACCTTCGGGAAAAAGTGCAAATATGCAAAAGTTTAGGGG
*
38322718 TCAAAATGA-AAATTTATAAA
1 TTAAAA-GACAAATTT-TAAA
38322738 AACATGATTT
Statistics
Matches: 481, Mismatches: 27, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
492 3 0.01
493 135 0.28
494 12 0.02
495 327 0.68
496 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (492 bp):
TTAAAAGACAAATTTTAAACCCCAAATGTGTCCCTTTCTTCTTGCTACAACAAAATGTACCAAGA
GCAGCCATGGTTAGGGTTTGGCCAAGCTTCCAAGCTTAACAGTAAGTGATTTCGAGCTCCATTTT
TAATGTTCTATGTATTTTTGAAATCCCGGTAACATGATCTGCTCATTTCTACCATTATTTTGAGC
TAGGATCTACGTTTAAAAATTTACCCATGAATGATATGCATGTATTTTGATGTTTAATGGTAGAA
TATGAAGCTTGAAATTGTGTTAAACAACGTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAACG
ACATAATCGGTAAAAATACCTAATGTCCATAAGCACATGTTAGAGTGAGAATTTGATATTGCTAT
AGAAACAAAAAATGACCAGCATGTCATAAAACATAAGAAAATAGGAAGAAGTTTAATTTTCGAAC
CTTCGGGAAAAAGTGCAAATATGCAAAAGTTTAGGGG
Found at i:38323343 original size:48 final size:47
Alignment explanation
Indices: 38323267--38323383 Score: 162
Period size: 48 Copynumber: 2.5 Consensus size: 47
38323257 TGAAAAAATG
38323267 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACA
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT-TAACA
* * * * * *
38323315 TGGTGCTAAGTGGATATTCCATGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATTAACA
*
38323362 TGGTGCAAAGTGGATATACCAC
1 TGGTGCTAAGTGGATATACCAC
38323384 AGTTAAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 23 0.38
48 37 0.62
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (47 bp):
TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATTAACA
Found at i:38324923 original size:34 final size:34
Alignment explanation
Indices: 38324876--38324943 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
38324866 AAGAAAATTA
38324876 GTTAAGTTGCCCAAAGATTTTCAACGTTCTTGGT
1 GTTAAGTTGCCCAAAGATTTTCAACGTTCTTGGT
* *
38324910 GTTAAGTTTCCCAAAGATTTTCAATGTTCTTGGT
1 GTTAAGTTGCCCAAAGATTTTCAACGTTCTTGGT
38324944 TTAGTCTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (34 bp):
GTTAAGTTGCCCAAAGATTTTCAACGTTCTTGGT
Found at i:38326724 original size:15 final size:15
Alignment explanation
Indices: 38326704--38326744 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
38326694 GCTGTAAATG
38326704 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
38326719 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
38326734 GGATTTCCTTA
1 GGATTTCCTTA
38326745 CTCTGGGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:38328595 original size:42 final size:42
Alignment explanation
Indices: 38328534--38328625 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
38328524 TGGCCCATAG
* *
38328534 GCCTATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCTATTTCAATAACACATGAAATACCAATGAATGTATACAA
**
38328576 GCCTATTTCAATATTACATGAAATACCAATGAATGTATACAA
1 GCCTATTTCAATAACACATGAAATACCAATGAATGTATACAA
*
38328618 GCCCATTT
1 GCCTATTT
38328626 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (42 bp):
GCCTATTTCAATAACACATGAAATACCAATGAATGTATACAA
Found at i:38328798 original size:25 final size:25
Alignment explanation
Indices: 38328770--38328889 Score: 170
Period size: 25 Copynumber: 4.8 Consensus size: 25
38328760 CTCTTTTAAT
*
38328770 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
38328795 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
38328820 AACTGGGGCGAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
38328845 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
38328870 AACTAGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
38328890 AGCACTTCCT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 6 0.07
25 80 0.93
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:38329740 original size:27 final size:27
Alignment explanation
Indices: 38329705--38329777 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
38329695 TTCGTCATTG
*
38329705 TACCATACAGGGG-TATTACAATCACTT
1 TACCCTACAGGGGCT-TTACAATCACTT
**
38329732 TACCCTACAGGGGCTTTACGGTCACTT
1 TACCCTACAGGGGCTTTACAATCACTT
38329759 TACCCTACAGGGGCTTTAC
1 TACCCTACAGGGGCTTTAC
38329778 GGTCTTTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (27 bp):
TACCCTACAGGGGCTTTACAATCACTT
Found at i:38329797 original size:26 final size:27
Alignment explanation
Indices: 38329726--38329781 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
38329716 GGTATTACAA
38329726 TCACTTTACCCTACAGGGGCTTTACGG
1 TCACTTTACCCTACAGGGGCTTTACGG
38329753 TCACTTTACCCTACAGGGGCTTTACGG
1 TCACTTTACCCTACAGGGGCTTTACGG
38329780 TC
1 TC
38329782 TTTTACCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (27 bp):
TCACTTTACCCTACAGGGGCTTTACGG
Found at i:38329872 original size:27 final size:27
Alignment explanation
Indices: 38329819--38330150 Score: 203
Period size: 27 Copynumber: 12.3 Consensus size: 27
38329809 TTTCATCCTA
* * * *
38329819 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
38329846 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
38329873 CAATGGTATTTCT-ATAATTTTTAGAAAC
1 CAAGGGTATTT-TGGTAA-TTTTATAAAC
* * *
38329901 TCAAGGGTGTTTCT-GTAACTTTGT-AAC
1 -CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
38329928 TCAGGGGTATTTTGGTAATTTTACAAAT
1 -CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
38329956 TAAGGGTATTTCGGTAGTTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
38329983 C-AGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* *
38330009 CTAGGAGTATTTTGGTAATTTTACAAAC
1 CAAGG-GTATTTTGGTAATTTTATAAAC
* * * * * *
38330037 TAGGGGTA-TTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
**
38330063 C-AGGGTATTTTGGTAATTTTATTGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
38330088 TAGAGGGTATTTTGGTAATTTTGTAAAC
1 CA-AGGGTATTTTGGTAATTTTATAAAC
* * *
38330116 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
38330143 CGAGGGTA
1 CAAGGGTA
38330151 AAATAGTAAT
Statistics
Matches: 240, Mismatches: 52, Indels: 26
0.75 0.16 0.08
Matches are distributed among these distances:
25 5 0.02
26 33 0.14
27 171 0.71
28 17 0.07
29 14 0.06
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:38330030 original size:81 final size:79
Alignment explanation
Indices: 38329925--38330135 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 79
38329915 GTAACTTTGT
* * * *
38329925 AACTCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAGTTTCACAAACCAGTGGT
1 AACT-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT-AGCAATTTCACAAACCAG-GGT
38329990 ATTTTGGTAATTTTACA
63 ATTTTGGTAATTTTACA
* * * *
38330007 AACTAGGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTAGCAATTTTACAGACCAGGGTATT
1 AACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTAGCAATTTCACAAACCAGGGTATT
**
38330072 TTGGTAATTTTATT
66 TTGGTAATTTTACA
* ** * *
38330086 GA-TAGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 AACTAG-GGGTATTTTGGTAATTTTACAAACTAAGGGTA-TTTAGCAATTT
38330136 TGTAAATCGA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
78 3 0.03
79 46 0.42
80 23 0.21
81 34 0.31
82 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (79 bp):
AACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTAGCAATTTCACAAACCAGGGTATT
TTGGTAATTTTACA
Found at i:38330148 original size:54 final size:54
Alignment explanation
Indices: 38329821--38330204 Score: 199
Period size: 54 Copynumber: 7.1 Consensus size: 54
38329811 TCATCCTACA
* * * * * * *
38329821 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * * * *
38329875 ATGGTATTTCT-ATAATTTTTAGAAACTCAAGGGTGTTTCT-GTAACTTTGTAACTC-
1 AGGGTATTT-TGGTAA-TTTTATAAAC-CAAGGGTATTT-TAGTAATTTTATAAATCG
* ** ** * * * *
38329930 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAGTTTCACAAA-CC
1 A-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
38329984 AGTGGTATTTTGGTAATTTTACAAA-CTAGGAGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAACCAAGG-GTATTTTAGTAATTTTATAAATCG
* * * * * ** *
38330038 AGGGGTA-TTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTATTGATAG
1 A-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* *
38330091 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCG
*** * * * * *** *
38330145 AGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCG
38330199 AGGGTA
1 AGGGTA
38330205 AAACGGTAAT
Statistics
Matches: 257, Mismatches: 58, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
52 23 0.09
53 37 0.14
54 145 0.56
55 19 0.07
56 32 0.12
57 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTATAAATCG
Found at i:38330157 original size:27 final size:27
Alignment explanation
Indices: 38330128--38330285 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 27
38330118 AGGGTATTTT
* * *
38330128 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
38330155 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
38330182 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
38330209 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
38330236 GGTAATTCTGTAAGTCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
38330263 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCAAGGGTA
38330286 CTTTGGTAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:38330188 original size:81 final size:81
Alignment explanation
Indices: 38330118--38330298 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
38330108 TTGTAAACCA
* * * * *
38330118 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATA
1 AGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
38330183 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*** * * * *
38330199 AGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCAAGGGTAAAACG
1 AGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
38330264 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*
38330280 AGGGTACTTTGGTAATTTT
1 AGGGTAATTTGGTAATTTT
38330299 ACAAGTCGAG
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
GTAATTCTATAAATCG
Found at i:38330296 original size:54 final size:54
Alignment explanation
Indices: 38330101--38330285 Score: 235
Period size: 54 Copynumber: 3.4 Consensus size: 54
38330091 AGGGTATTTT
* * *** * *
38330101 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
* *
38330155 AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
** * *
38330209 GGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCAAGGGTAAAAC
1 GGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
* *
38330263 GGTAATTCTATAAATCGAGGGTA
1 GGTAATTCTGTAAATCAAGGGTA
38330286 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
GGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:38333173 original size:47 final size:48
Alignment explanation
Indices: 38333050--38333188 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
38333040 TACGACAGTT
* * * *
38333050 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCATGGTTACATATATTG
* *
38333098 ATACATGTAACGTGGTGCTAGGTGGATATGCCATGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCATGGTTACATATATTG
* *
38333146 ATTCAT-TAACGTGGTGCTAAGTGGATATACCATGGTTAAATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCATGGTTACATAT
38333189 GTAGCGTGGT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 34 0.42
48 47 0.58
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCATGGTTACATATATTG
Found at i:38335822 original size:18 final size:18
Alignment explanation
Indices: 38335799--38335836 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
38335789 GGTTTTTCTT
38335799 AAATGAAAGATTTAAACA
1 AAATGAAAGATTTAAACA
38335817 AAATGAAAGATTTAAACA
1 AAATGAAAGATTTAAACA
38335835 AA
1 AA
38335837 CTTCAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATGAAAGATTTAAACA
Found at i:38338516 original size:20 final size:20
Alignment explanation
Indices: 38338474--38338516 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38338464 CATGGATGTA
*
38338474 TATGCTAGAAATTAGAAATT
1 TATGCTAGAAAATAGAAATT
*
38338494 TATGGTAGAAAAT-GAAATAT
1 TATGCTAGAAAATAGAAAT-T
38338514 TAT
1 TAT
38338517 TGATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATAGAAATT
Found at i:38338601 original size:20 final size:20
Alignment explanation
Indices: 38338576--38338620 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38338566 AGGGACTAAA
*
38338576 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTCTAAAATTTG
* *
38338596 ATGAAAATTTCTAAAATTTT
1 ATGAAAAGTTCTAAAATTTG
38338616 ATGAA
1 ATGAA
38338621 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAGTTCTAAAATTTG
Found at i:38346392 original size:28 final size:28
Alignment explanation
Indices: 38346361--38346424 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
38346351 GTGATAGAGT
* **
38346361 CACCAGATACAGATAATTGTAGCAGGGC
1 CACCAGAAACAGATAATTGTAGCAAAGC
* *
38346389 CACCAGAAACAGATATTTGTGGCAAAGC
1 CACCAGAAACAGATAATTGTAGCAAAGC
38346417 CACCAGAA
1 CACCAGAA
38346425 CGCTTCCTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (28 bp):
CACCAGAAACAGATAATTGTAGCAAAGC
Found at i:38347674 original size:18 final size:18
Alignment explanation
Indices: 38347630--38347678 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
38347620 TATAGAGGAA
*
38347630 AAGAAGAAGAAGAAGAAAT
1 AAGAAG-AGAAGAAAAAAT
*
38347649 AGATGAAGAGAGGAAAAAAT
1 A-A-GAAGAGAAGAAAAAAT
38347669 AAGAAGAGAA
1 AAGAAGAGAA
38347679 AAGAATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 12 0.48
21 4 0.16
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (18 bp):
AAGAAGAGAAGAAAAAAT
Found at i:38348813 original size:27 final size:27
Alignment explanation
Indices: 38348797--38349429 Score: 890
Period size: 27 Copynumber: 23.2 Consensus size: 27
38348787 TAATTTGTAA
*
38348797 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAG
38348824 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38348851 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* *
38348878 AATTATCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38348905 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* *
38348932 AATTATCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38348959 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* *
38348986 AATTATCGTTTTACCCTCAATTTATAGAATAAG
1 AATTACCGTTTTACCCTCGA-TT-T---AT-AG
*
38349019 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* * * *
38349046 AATTACCATTTTACCTTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAG
38349073 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38349100 AATTACCAG-TTTACCCTCGATTTACAG
1 AATTACC-GTTTTACCCTCGATTTATAG
* *
38349127 AATTATCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38349154 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* *
38349181 AATTATCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38349208 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* *
38349235 AATTATCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38349262 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
* *
38349289 AATTATCGTTTTACCCTCAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38349316 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
38349343 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAG
*
38349370 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAG
*** * *
38349397 AATTACTAATTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAG
38349424 AATTAC
1 AATTAC
38349430 TAAAATACCC
Statistics
Matches: 540, Mismatches: 58, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.00
27 507 0.94
28 5 0.01
29 1 0.00
31 1 0.00
32 4 0.01
33 21 0.04
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTATAG
Found at i:38349021 original size:33 final size:33
Alignment explanation
Indices: 38348984--38349048 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
38348974 CTCGATTTAT
*
38348984 AGAATTATCGTTTTACCCTCAATTTATAGAATA
1 AGAATTACCGTTTTACCCTCAATTTATAGAATA
38349017 AGAATTACCGTTTTACCCTCAATTTATAGAAT
1 AGAATTACCGTTTTACCCTCAATTTATAGAAT
38349049 TACCATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (33 bp):
AGAATTACCGTTTTACCCTCAATTTATAGAATA
Found at i:38349438 original size:27 final size:27
Alignment explanation
Indices: 38349300--38349615 Score: 143
Period size: 27 Copynumber: 11.7 Consensus size: 27
38349290 ATTATCGTTT
* * * ***
38349300 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* *****
38349327 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* *****
38349354 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * **
38349381 TACCCTCGATTTACAGAATTACTAATT
1 TACCCTCGATTTATAAAATTACTAAAA
*
38349408 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
38349435 TACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* ** *
38349462 TACCCTTGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
38349489 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* * **
38349516 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* * ** * *
38349543 TGCCCTTGGCTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * * *
38349570 TACTCTTGATTTGTGAAATTA-TCGAAA
1 TACCCTCGATTTATAAAATTACT-AAAA
* *
38349597 TACTCTCGATTTGTAAAAT
1 TACCCTCGATTTATAAAAT
38349616 ATCGAAATAC
Statistics
Matches: 249, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
27 249 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:38349466 original size:81 final size:81
Alignment explanation
Indices: 38348769--38349548 Score: 271
Period size: 81 Copynumber: 9.6 Consensus size: 81
38348759 TTAGTTTACC
* * ** * *** * **
38348769 AAATTACTGAAATGCCCTTAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTT
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
38348834 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* * *** * * * * *** * *
38348850 GAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAATTTATAGAATTACCATT
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
38348915 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* ** *** * ** *
38348931 GAATTATCGT--TTTACCCTCAATTTATAGAATTACC-ATTTTACCCTCGATTTATAGAATTATC
1 AAATTA-C-TAAAATACCCTTGGTTTATAAAATTACCGA-AATACCCTCGATTTATAGAATTACC
** *
38348993 GTTTTACCCTCAATTTATAGAATA
63 AATTTACCCTCGA-TT-T---ATA
***** *** * ** * * * *
38349017 AGAATTACCGTTTTACCCTCAATTTATAGAATTACC-ATTTTACCTTTGATTTACAGAATTACCG
1 A-AATTACTAAAATACCCTTGGTTTATAAAATTACCGA-AATACCCTCGATTTATAGAATTACCA
*
38349081 TTTTACCCTCGATTTATA
64 ATTTACCCTCGATTTATA
* * *** * * * * * *** * *
38349099 GAATTACCAGTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTATAGAATTACCATT
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
38349164 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* ** *** * ** *
38349180 GAATTATCGT--TTTACCCTCAATTTATAGAATTACC-ATTTTACCCTCGATTTATAGAATTATC
1 AAATTA-C-TAAAATACCCTTGGTTTATAAAATTACCGA-AATACCCTCGATTTATAGAATTACC
** *
38349242 GTTTTACCCTCAATTTATA
63 AATTTACCCTCGATTTATA
* * *** * * * * *** * *
38349261 GAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAATTTATAGAATTACCATT
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
38349326 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* ***** * * * *** * *
38349342 GAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTAAT
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
*
38349407 TTACCCTCGATTTACA
66 TTACCCTCGATTTATA
* * ** * *
38349423 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGATCAATAAAATTACCAAA
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
* * *
38349488 ATACCC-CTGGTTTGTA
66 TTACCCTC-GATTTATA
* * *
38349504 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATGCCCT
1 AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCT
38349549 TGGCTTGTAA
Statistics
Matches: 586, Mismatches: 94, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.00
81 504 0.86
82 7 0.01
83 1 0.00
85 1 0.00
86 6 0.01
87 65 0.11
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
AAATTACTAAAATACCCTTGGTTTATAAAATTACCGAAATACCCTCGATTTATAGAATTACCAAT
TTACCCTCGATTTATA
Found at i:38349533 original size:54 final size:54
Alignment explanation
Indices: 38349408--38349615 Score: 218
Period size: 54 Copynumber: 3.9 Consensus size: 54
38349398 ATTACTAATT
* ** * *
38349408 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*** * *
38349462 TACCCTTGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * *
38349516 TACCCCTGGTTTGTAAAATTACCGAAATGCCCTTGGCTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * * * *
38349570 TACTCTTGATTTGTGAAATTATCGAAATACTCTCGATTTGTAAAAT
1 TACCCTTGATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
38349616 ATCGAAATAC
Statistics
Matches: 126, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TACCCTTGATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:38349599 original size:81 final size:81
Alignment explanation
Indices: 38349422--38349590 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 81
38349412 CTCGATTTAC
*
38349422 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGATCAATAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTGATCAATAAAATTACCAA
*
38349487 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* * * * **
38349503 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATGCCCTTG-GCTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTGATC-AATAAAATTACCA
* *
38349567 AAATACTCTTGATTTGT
65 AAATACCCCTGATTTGT
*
38349584 GAAATTA
1 AAAATTA
38349591 TCGAAATACT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 75 0.99
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTGATCAATAAAATTACCAA
AATACCCCTGATTTGT
Found at i:38349610 original size:81 final size:80
Alignment explanation
Indices: 38349422--38349623 Score: 194
Period size: 81 Copynumber: 2.5 Consensus size: 80
38349412 CTCGATTTAC
* * * * * * **
38349422 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTT-GATCAATAAAATTACCA
1 AAAATTACTAAAATACCCCTGATTTGTAAAA-TACCGAAATGCCCTTGGCT-TGTAAAATTACCA
*
38349486 AAATACCCCTGGTTTGT
64 AAATACCCCTGATTTGT
*
38349503 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATGCCCTTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGATTTGTAAAA-TACCGAAATGCCCTTGGCTTGTAAAATTACCAA
* *
38349568 AATACTCTTGATTTGT
65 AATACCCCTGATTTGT
* * * *
38349584 GAAATTA-TCGAAATA-CTCTCGATTTGTAAAATATCGAAAT
1 AAAATTACT-AAAATACCCCT-GATTTGTAAAATACCGAAAT
38349624 ACCCCTGTAG
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 12 0.12
81 89 0.86
82 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGATTTGTAAAATACCGAAATGCCCTTGGCTTGTAAAATTACCAAA
ATACCCCTGATTTGT
Found at i:38349625 original size:26 final size:26
Alignment explanation
Indices: 38349553--38349625 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
38349543 TGCCCTTGGC
* * *
38349553 TTGTAAAATTACCAAAATACTCTTGAT
1 TTGTAAAA-TATCGAAATACTCTCGAT
*
38349580 TTGTGAAATTATCGAAATACTCTCGAT
1 TTGT-AAAATATCGAAATACTCTCGAT
38349607 TTGTAAAATATCGAAATAC
1 TTGTAAAATATCGAAATAC
38349626 CCCTGTAGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 14 0.35
27 23 0.57
28 3 0.08
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (26 bp):
TTGTAAAATATCGAAATACTCTCGAT
Found at i:38349658 original size:27 final size:27
Alignment explanation
Indices: 38349619--38349832 Score: 286
Period size: 27 Copynumber: 8.0 Consensus size: 27
38349609 GTAAAATATC
38349619 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38349646 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38349673 GAAATAACCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38349700 GAAATACCCCTATAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38349727 GAAATACCCCTATAGCGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
38349754 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38349781 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
38349808 G-AGTACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
38349833 CATTTTGCCC
Statistics
Matches: 166, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 20 0.12
27 146 0.88
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:38350072 original size:25 final size:25
Alignment explanation
Indices: 38350038--38350107 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
38350028 AGGAAGTGCT
*
38350038 AAAAGGGCTTTGCCCCAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
*
38350063 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
* *
38350088 AAAATGACTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38350108 ATTGAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:38351513 original size:38 final size:38
Alignment explanation
Indices: 38351462--38351539 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
38351452 AGCTGTAGGA
38351462 TGACTACTTCGGGCTGCAATGGGCCGAAAGGGGTCATG
1 TGACTACTTCGGGCTGCAATGGGCCGAAAGGGGTCATG
38351500 TGACTACTTCGGGCTGCAATGGGCCGAAAGGGGTCATG
1 TGACTACTTCGGGCTGCAATGGGCCGAAAGGGGTCATG
38351538 TG
1 TG
38351540 GGCCCAATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.22
Consensus pattern (38 bp):
TGACTACTTCGGGCTGCAATGGGCCGAAAGGGGTCATG
Found at i:38351777 original size:27 final size:27
Alignment explanation
Indices: 38351763--38353019 Score: 2208
Period size: 27 Copynumber: 46.2 Consensus size: 27
38351753 CAATTTGTAA
*
38351763 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38351790 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38351817 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38351844 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38351871 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38351898 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38351925 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
38351952 AATTACCATTTTACCCTCGATTCTCGATTTATAA
1 AATTACCATTTTA--C-C----CTCGATTTACAG
* *
38351986 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
38352013 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
38352040 AAATTACCATTTTACCCTCGATTTATAG
1 -AATTACCATTTTACCCTCGATTTACAG
38352068 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352095 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352122 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352149 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352176 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352203 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352230 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352257 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352284 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352311 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352338 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352365 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352392 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352419 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352446 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352473 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352500 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352527 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352554 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352581 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352608 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352635 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352662 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352689 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
38352716 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
38352743 AATTACCATTTTACCCTCGATTTGCAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
38352770 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
38352797 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
38352824 AAATTACCATTTTACCCTCGATTTATAG
1 -AATTACCATTTTACCCTCGATTTACAG
* *
38352852 AATTACCATTTTACCCTTGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
38352879 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
38352906 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
38352933 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
38352960 AATTATTATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
* *
38352987 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCATTTTACCCTCGATTTACAG
38353014 AATTAC
1 AATTAC
38353020 TAAAATACCC
Statistics
Matches: 1190, Mismatches: 31, Indels: 18
0.96 0.03 0.01
Matches are distributed among these distances:
27 1112 0.93
28 52 0.04
29 1 0.00
30 1 0.00
31 1 0.00
32 1 0.00
34 22 0.02
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:38353037 original size:27 final size:27
Alignment explanation
Indices: 38353007--38353182 Score: 138
Period size: 27 Copynumber: 6.9 Consensus size: 27
38352997 TTACCCTCGA
*
38353007 TTTATAAAATTACTAAAATACCCTTAG
1 TTTATAAAATTACCAAAATACCCTTAG
* *
38353034 TTTACAAAATTACCAAAATACCCTCAG
1 TTTATAAAATTACCAAAATACCCTTAG
* *
38353061 TTTACAAAATTACCAAAATACCC-TCG
1 TTTATAAAATTACCAAAATACCCTTAG
* * *
38353087 ---AT--CAGT---AAAATACCTC-TGG
1 TTTATAAAATTACCAAAATACC-CTTAG
* * *
38353106 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTAG
* *
38353133 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTAG
* *
38353160 CTTGTAAAATTACCAAAATACCC
1 TTTATAAAATTACCAAAATACCC
38353183 CTAATTTGTG
Statistics
Matches: 122, Mismatches: 17, Indels: 20
0.77 0.11 0.13
Matches are distributed among these distances:
18 8 0.07
19 3 0.02
21 2 0.02
22 1 0.01
23 1 0.01
24 2 0.02
26 2 0.02
27 103 0.84
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTAG
Found at i:38353056 original size:54 final size:53
Alignment explanation
Indices: 38352781--38353223 Score: 159
Period size: 54 Copynumber: 8.4 Consensus size: 53
38352771 ATTATCGTTT
* * *** * * ***
38352781 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCT-AGTTTACA-AAATTACCAAAA
* * *** * * * ***
38352836 TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTAG-TTTACAAAATTACCAAAA
* * *** * * ****
38352890 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTAG-TTTACAAAATTACCAAAA
* * *** * ***
38352944 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTAG-TTTACAAAATTACCAAAA
38352998 TACCCTCGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCC-TAGTTTACAAAATTACCAAAA
* * * * *
38353052 TACCCTC-AGTTTACAAAATTACCAAAATACCCTCG-AT-C---AGT---AAAA
1 TACCCTCGA-TTTATAAAATTACTAAAATACCCTAGTTTACAAAATTACCAAAA
* * **
38353097 TA-CCTCTGGTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACTAAAATA-CCCTAGTTTACAAAATTACCAAAA
* ** * * * *** * *
38353151 TACCCTTGGCTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATCGAAA
1 TACCCTCGATTTATAAAATTACTAAAATA-CCCTAGTTTACAAAATTACCAAAA
* *
38353205 TACTCTCGATTTGTAAAAT
1 TACCCTCGATTTATAAAAT
38353224 ATCGAAATAC
Statistics
Matches: 330, Mismatches: 43, Indels: 31
0.82 0.11 0.08
Matches are distributed among these distances:
44 4 0.01
45 23 0.07
46 5 0.02
47 1 0.00
48 2 0.01
51 3 0.01
52 1 0.00
53 3 0.01
54 244 0.74
55 44 0.13
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.36
Consensus pattern (53 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTAGTTTACAAAATTACCAAAA
Found at i:38353191 original size:27 final size:27
Alignment explanation
Indices: 38353106--38353237 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
38353096 ATACCTCTGG
* *
38353106 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTGTAAAATTACCAAAATACCCCTAA
* **
38353133 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACCAAAATACCCCTAA
*
38353160 CTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCAAAATACCCCTAA
* * * * *
38353187 TTTGTGAAATTATCGAAATA-CTCTCGA
1 TTTGTAAAATTACCAAAATACCCCT-AA
* *
38353214 TTTGTAAAA-TATCGAAATACCCCT
1 TTTGTAAAATTACCAAAATACCCCT
38353238 GTAGGGTAGA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 13 0.15
27 75 0.85
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTAA
Found at i:38353261 original size:27 final size:27
Alignment explanation
Indices: 38353227--38353630 Score: 594
Period size: 27 Copynumber: 15.0 Consensus size: 27
38353217 GTAAAATATC
38353227 GAAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38353253 CAAAATACCCCTGTAGGGTAGAATTACT
1 -GAAATACCCCTGTAGGGTAGAATTACT
*
38353281 GAAATAACCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38353308 GAAATACCCCTATAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
38353335 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
38353362 GAAATACCCTTTTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
38353389 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
38353416 GAAATAACCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
38353443 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
38353470 GAAATAACCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
38353497 GAAATACCCCTATAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
38353524 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
38353551 AAAATACCCTTGTAGGGTAGAAGTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
38353578 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
38353605 GAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
38353631 CATTTTGCCC
Statistics
Matches: 336, Mismatches: 40, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
27 335 1.00
28 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:38353870 original size:25 final size:25
Alignment explanation
Indices: 38353836--38353930 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
38353826 AGGAAGTGCT
38353836 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38353861 AAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
38353886 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38353911 AAAACGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38353931 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:38353943 original size:24 final size:24
Alignment explanation
Indices: 38353836--38353966 Score: 120
Period size: 25 Copynumber: 5.2 Consensus size: 24
38353826 AGGAAGTGCT
*
38353836 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
* *
38353861 AAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
38353886 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAT-G
* *
38353911 AAAACGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
38353934 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
38353961 ATAAAG
1 A-AAAG
38353967 CAGCTATGCT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
23 4 0.04
24 11 0.12
25 66 0.73
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:38356309 original size:20 final size:20
Alignment explanation
Indices: 38356271--38356315 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
38356261 AAGGGCTAAA
* *
38356271 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
38356291 ATGAAAAATTCTAATATTTT
1 ATGAAAAATTCTAAAATTTG
38356311 ATGAA
1 ATGAA
38356316 TACATGTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:38359379 original size:92 final size:92
Alignment explanation
Indices: 38359222--38359389 Score: 257
Period size: 92 Copynumber: 1.8 Consensus size: 92
38359212 GGATGGTTGA
* **
38359222 GCATCCGAACTCGTTGAGTTGAGTCTGAGTCACTTATGGATGCAAATGTCCAAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCAAATCCCCAAACTCGTTGAGTT
38359287 GAGTCCGAGTTTGTGAGATGTAACTAG
66 GAGTCCGAGTTTGTGAGATGTAACTAG
* * * *
38359314 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-CCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TCACTTATGGATGCAAATCCCCAAACTCGTTGAGT
38359378 TGAGTCCGAGTT
65 TGAGTCCGAGTT
38359390 CACTTAGGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 53 0.78
93 15 0.22
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTCACTTATGGATGCAAATCCCCAAACTCGTTGAGTT
GAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:38359657 original size:19 final size:20
Alignment explanation
Indices: 38359620--38359657 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38359610 ATAAGGTGGT
38359620 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38359640 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38359658 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38367050 original size:81 final size:82
Alignment explanation
Indices: 38366893--38367133 Score: 299
Period size: 81 Copynumber: 3.0 Consensus size: 82
38366883 AAAAAATGGC
* * * *
38366893 CGAAATACCCTCATAGGGTAAAATGACCGAAATTCCC-CATAGGGTAAAATGACCTAAATACCCC
1 CGAAATACCCTCATAGGGTAAAATGACTGAAATACCCTTATAGGGTAAAATGACCGAAATACCCC
38366957 TATAAGGTAAAATGAAT
66 TATAAGGTAAAATGAAT
* ** * * *
38366974 -GTAATACCCTTGTAGGGTAAAATGACTGTAATACCCTTGTAGGGTAAAATCACCGAAATACCCC
1 CGAAATACCCTCATAGGGTAAAATGACTGAAATACCCTTATAGGGTAAAATGACCGAAATACCCC
* *
38367038 CATAGGGTAAAAT-AAT
66 TATAAGGTAAAATGAAT
* * * * *
38367054 CGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTTATAAGCTAAAATGACTGTAATACCCC
1 CGAAATACCCTCATAGGGTAAAATGACTGAAATACCCTTATAGGGTAAAATGACCGAAATACCCC
*
38367119 TGTAAGGTAAAATGA
66 TATAAGGTAAAATGA
38367134 CTTATTTGCC
Statistics
Matches: 131, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
80 33 0.25
81 97 0.74
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (82 bp):
CGAAATACCCTCATAGGGTAAAATGACTGAAATACCCTTATAGGGTAAAATGACCGAAATACCCC
TATAAGGTAAAATGAAT
Found at i:38367135 original size:27 final size:27
Alignment explanation
Indices: 38366885--38367135 Score: 240
Period size: 27 Copynumber: 9.3 Consensus size: 27
38366875 TGGGCCGAAA
* *
38366885 AAAATGGCCGAAATA-CCCTCATAGGGT
1 AAAATGACTGAAATACCCCT-ATAGGGT
* *
38366912 AAAATGACCGAAATTCCCC-ATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
*
38366938 AAAATGACCT-AAATACCCCTATAAGGT
1 AAAATGA-CTGAAATACCCCTATAGGGT
* * * *
38366965 AAAATGAATGTAATACCCTTGTAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* * *
38366992 AAAATGACTGTAATACCCTTGTAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* * *
38367019 AAAATCACCGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* *
38367046 AAAAT-AATCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATACCCCTATAGGGT
* * *
38367073 AAAATGACTGAAATACCCTTATAAGCT
1 AAAATGACTGAAATACCCCTATAGGGT
* * *
38367100 AAAATGACTGTAATACCCCTGTAAGGT
1 AAAATGACTGAAATACCCCTATAGGGT
38367127 AAAATGACT
1 AAAATGACT
38367136 TATTTGCCTA
Statistics
Matches: 190, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 24 0.13
27 161 0.85
28 5 0.03
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCTATAGGGT
Found at i:38371892 original size:48 final size:48
Alignment explanation
Indices: 38371840--38371932 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
38371830 AAATAGCCGA
* * *
38371840 AGCTATATCAATCTCGCACACTAAGTGCCAATATGTATATATAGCTGG
1 AGCTATATCAATCACACACACTAAGTGCCAATATATATATATAGCTGG
* * * *
38371888 AGCTATCTCAATCACATACACTAAGTGCTAATATATGTATATAGC
1 AGCTATATCAATCACACACACTAAGTGCCAATATATATATATAGC
38371933 CAAAGTTATC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (48 bp):
AGCTATATCAATCACACACACTAAGTGCCAATATATATATATAGCTGG
Found at i:38376001 original size:20 final size:20
Alignment explanation
Indices: 38375973--38376011 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38375963 CTAGGAACTA
38375973 TGTGATCTGAGCTCATGATT
1 TGTGATCTGAGCTCATGATT
* *
38375993 TGTGGTCTGAGTTCATGAT
1 TGTGATCTGAGCTCATGAT
38376012 ATATGTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGATT
Found at i:38380066 original size:16 final size:16
Alignment explanation
Indices: 38380045--38380083 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38380035 AAAATTAAAG
* *
38380045 AAATATATATTTTTTA
1 AAATATATATCTTTAA
*
38380061 AAATATTTATCTTTAA
1 AAATATATATCTTTAA
38380077 AAATATA
1 AAATATA
38380084 AGTCCATCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATATATCTTTAA
Found at i:38383145 original size:18 final size:18
Alignment explanation
Indices: 38383114--38383159 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
38383104 CTTCCAAACA
* *
38383114 TATTTATAATTTTTATTT
1 TATTTTTAAGTTTTATTT
*
38383132 TATTTTTAAGTTTTTTTT
1 TATTTTTAAGTTTTATTT
38383150 TAATTTTTAA
1 T-ATTTTTAA
38383160 TTAATAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TATTTTTAAGTTTTATTT
Found at i:38383155 original size:19 final size:19
Alignment explanation
Indices: 38383114--38383159 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38383104 CTTCCAAACA
*
38383114 TATTTATAA-TTTTTATTT
1 TATTTTTAAGTTTTTATTT
38383132 TATTTTTAAGTTTTT-TTT
1 TATTTTTAAGTTTTTATTT
38383150 TAATTTTTAA
1 T-ATTTTTAA
38383160 TTAATAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TATTTTTAAGTTTTTATTT
Found at i:38393729 original size:25 final size:25
Alignment explanation
Indices: 38393700--38393759 Score: 104
Period size: 24 Copynumber: 2.4 Consensus size: 25
38393690 TCACTACCTG
38393700 ATCAGGATGCTTACAAGAACTATAC
1 ATCAGGATGCTTACAAGAACTATAC
*
38393725 ATCAGGATGC-TGCAAGAACTATAC
1 ATCAGGATGCTTACAAGAACTATAC
38393749 ATCAGGATGCT
1 ATCAGGATGCT
38393760 CGAGAGGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (25 bp):
ATCAGGATGCTTACAAGAACTATAC
Found at i:38399932 original size:93 final size:93
Alignment explanation
Indices: 38399824--38400224 Score: 766
Period size: 93 Copynumber: 4.3 Consensus size: 93
38399814 GCCCCTAAGT
* * * *
38399824 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38399889 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
38399917 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38399982 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
38400010 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38400075 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
38400103 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38400168 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
38400196 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
38400225 TGCTCAACCA
Statistics
Matches: 304, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 304 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38399934 original size:47 final size:47
Alignment explanation
Indices: 38399870--38400227 Score: 359
Period size: 47 Copynumber: 7.7 Consensus size: 47
38399860 ATCCATAAGT
38399870 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
38399917 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--TTCA-C
38399963 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
38400010 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--TTCA-C
38400056 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
38400103 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--TTCA-C
38400149 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
*
38400196 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGC
38400228 TCAACCATCC
Statistics
Matches: 253, Mismatches: 31, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.05
44 3 0.01
45 6 0.02
46 84 0.33
47 115 0.45
48 6 0.02
49 3 0.01
50 12 0.05
51 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38400177 original size:46 final size:46
Alignment explanation
Indices: 38399819--38400177 Score: 319
Period size: 46 Copynumber: 7.7 Consensus size: 46
38399809 AACCCGCCCC
** * * *
38399819 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
* *
38399865 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-A-TTCGCATCCA
* * *
38399913 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
* *
38399958 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-A-TTCGCATCCA
* * *
38400006 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
* *
38400051 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-A-TTCGCATCCA
* * *
38400099 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
38400144 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
38400178 TGCCTAGTTA
Statistics
Matches: 251, Mismatches: 35, Indels: 54
0.74 0.10 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.05
44 3 0.01
45 6 0.02
46 114 0.45
47 84 0.33
48 6 0.02
49 3 0.01
50 11 0.04
51 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
Found at i:38400682 original size:30 final size:30
Alignment explanation
Indices: 38400648--38400706 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
38400638 TTTAATACGA
38400648 ACTTTGGAAAAATTACACTTTTGCCCCTAC
1 ACTTTGGAAAAATTACACTTTTGCCCCTAC
* * **
38400678 ACTTTTGCATTATTACACTTTTGCCCCTA
1 ACTTTGGAAAAATTACACTTTTGCCCCTA
38400707 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTGGAAAAATTACACTTTTGCCCCTAC
Found at i:38402265 original size:17 final size:17
Alignment explanation
Indices: 38402211--38402265 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
38402201 GATAATGAAG
*
38402211 ATTACATACCAAAGAAT
1 ATTACAAACCAAAGAAT
*
38402228 ATATA-AAACAAAAGGAAT
1 AT-TACAAACCAAA-GAAT
*
38402246 ATTACAAACCAAATAAT
1 ATTACAAACCAAAGAAT
38402263 ATT
1 ATT
38402266 GGTGGCGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (17 bp):
ATTACAAACCAAAGAAT
Found at i:38404619 original size:31 final size:31
Alignment explanation
Indices: 38404575--38404655 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
38404565 CCCTAAAATC
38404575 ATAA-AAAAACCTAAACAACCTAAAACCATA
1 ATAATAAAAACCTAAACAACCTAAAACCATA
* * *
38404605 ATAATAAAATCCTAAAAAACCTAAAACCCTA
1 ATAATAAAAACCTAAACAACCTAAAACCATA
*
38404636 ATTAAT-AAACCCTAAACAAC
1 A-TAATAAAAACCTAAACAAC
38404656 AAAAAAAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 4 0.09
31 36 0.82
32 4 0.09
ACGTcount: A:0.59, C:0.23, G:0.00, T:0.17
Consensus pattern (31 bp):
ATAATAAAAACCTAAACAACCTAAAACCATA
Found at i:38406644 original size:29 final size:27
Alignment explanation
Indices: 38406626--38406695 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
38406616 ATATTAAGTC
38406626 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
38406653 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
38406681 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
38406696 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:38406689 original size:28 final size:28
Alignment explanation
Indices: 38406626--38406723 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
38406616 ATATTAAGTC
*
38406626 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38406653 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38406681 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38406710 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38406724 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38414773 original size:29 final size:29
Alignment explanation
Indices: 38414710--38414777 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
38414700 TAATCAACCG
38414710 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38414739 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38414768 CGCACACTTA
1 CGCACACTTA
38414778 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38414890 original size:174 final size:174
Alignment explanation
Indices: 38414599--38415100 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
38414589 AACTCAAGGT
* *
38414599 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
38414664 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
38414729 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
38414773 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
38414838 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
38414903 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
38414947 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
38415012 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
38415077 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
38415101 TGTACAATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38414947 original size:29 final size:29
Alignment explanation
Indices: 38414884--38414951 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
38414874 TAATCAACCA
*
38414884 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38414913 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38414942 CGCACACTTA
1 CGCACACTTA
38414952 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38418769 original size:18 final size:19
Alignment explanation
Indices: 38418743--38418778 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38418733 AAAATAACCT
*
38418743 AAATGAAAA-CTAAGAATG
1 AAATAAAAACCTAAGAATG
38418761 AAATAAAAACCTAAGAAT
1 AAATAAAAACCTAAGAAT
38418779 CAAACCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.08, G:0.11, T:0.17
Consensus pattern (19 bp):
AAATAAAAACCTAAGAATG
Found at i:38420440 original size:25 final size:25
Alignment explanation
Indices: 38420412--38420462 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
38420402 CATTAGAAGG
38420412 TATATTAAATGGATATTGTTCACAA
1 TATATTAAATGGATATTGTTCACAA
38420437 TATATTAAATGGATATTGTTCACAA
1 TATATTAAATGGATATTGTTCACAA
38420462 T
1 T
38420463 GTCATAACAA
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:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (25 bp):
TATATTAAATGGATATTGTTCACAA
Found at i:38427122 original size:13 final size:13
Alignment explanation
Indices: 38427104--38427128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38427094 TACAATAAGG
38427104 GGCACACGACCAA
1 GGCACACGACCAA
38427117 GGCACACGACCA
1 GGCACACGACCA
38427129 TGGCCAGAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (13 bp):
GGCACACGACCAA
Done.