Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 14 of 27
Found at i:2006527 original size:13 final size:13
Alignment explanation
Indices: 2006509--2006534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2006499 ATAAAGATCC
2006509 ATGTATCGATACA
1 ATGTATCGATACA
2006522 ATGTATCGATACA
1 ATGTATCGATACA
2006535 TTTCGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2006546 original size:20 final size:20
Alignment explanation
Indices: 2006521--2006558 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2006511 GTATCGATAC
2006521 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
2006541 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
2006559 CTTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:2007271 original size:62 final size:59
Alignment explanation
Indices: 2007194--2007446 Score: 219
Period size: 58 Copynumber: 4.3 Consensus size: 59
2007184 GACAAATGTA
* *
2007194 CCAATGTG-TAGATTCAATCAAGGCTTGCAACATTGGACTTGAGAAAGAAGGTTTAACAACTG
1 CCAATGTGCTA-ATTCAA--AA-GCTAGCAACATTGGACTCGAGAAAGAAGGTTTAACAACTG
** * *
2007256 CCAATGTGCTAATTC-AAAGCTAGTGACATTGGGCTCGAGAAAGAAGGTTTAACAAGTG
1 CCAATGTGCTAATTCAAAAGCTAGCAACATTGGACTCGAGAAAGAAGGTTTAACAACTG
* * * * * *
2007314 CCAATGTGCTAATTC-AAAGCTAGCGACATTGGGCTCGAGGAAGAAGATTAAACAAGTG
1 CCAATGTGCTAATTCAAAAGCTAGCAACATTGGACTCGAGAAAGAAGGTTTAACAACTG
* * ** * * * * * *
2007372 CTAATGTGCTAACTC-AAAGCTAGTGACGTTGGGCTTGAGAATA-AAGATTTGACAAGTG
1 CCAATGTGCTAATTCAAAAGCTAGCAACATTGGACTCGAGAA-AGAAGGTTTAACAACTG
*
2007430 CCAATGTGCTGATTCAA
1 CCAATGTGCTAATTCAA
2007447 GGCCAGTGAC
Statistics
Matches: 167, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
58 148 0.89
59 4 0.02
61 1 0.01
62 12 0.07
63 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (59 bp):
CCAATGTGCTAATTCAAAAGCTAGCAACATTGGACTCGAGAAAGAAGGTTTAACAACTG
Found at i:2007298 original size:58 final size:58
Alignment explanation
Indices: 2007223--2007569 Score: 352
Period size: 58 Copynumber: 6.1 Consensus size: 58
2007213 AAGGCTTGCA
* * *
2007223 ACATTGGACTTGAGAAAGAAGGTTTAACAACTGCCAATGTGCTAATTCAAAGCTAGTG
1 ACATTGGGCTTGAGAAAGAAGATTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGTG
* * *
2007281 ACATTGGGCTCGAGAAAGAAGGTTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGCG
1 ACATTGGGCTTGAGAAAGAAGATTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGTG
* * * * *
2007339 ACATTGGGCTCGAGGAAGAAGATTAAACAAGTGCTAATGTGCTAACTCAAAGCTAGTG
1 ACATTGGGCTTGAGAAAGAAGATTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGTG
* * * * *
2007397 ACGTTGGGCTTGAGAATA-AAGATTTGACAAGTGCCAATGTGCTGATTCAAGGCCAGTG
1 ACATTGGGCTTGAGAA-AGAAGATTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGTG
* * * * * * *
2007455 ACATTGGGCTTGAGAATA-AAGATTTGACAAGTGTCGATGTGTTGATTCAAGGCCAGTG
1 ACATTGGGCTTGAGAA-AGAAGATTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGTG
* * * **
2007513 ACTTTAGGCTT---AAAGATGA--TAA-GGGTGCCAATGTGCTAATT-AAAGGCTAGTG
1 ACATTGGGCTTGAGAAAGAAGATTTAACAAGTGCCAATGTGCTAATTCAAA-GCTAGTG
2007565 ACATT
1 ACATT
2007570 AGACTTAAAG
Statistics
Matches: 249, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.01
52 23 0.09
53 2 0.01
54 1 0.00
55 5 0.02
58 215 0.86
59 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (58 bp):
ACATTGGGCTTGAGAAAGAAGATTTAACAAGTGCCAATGTGCTAATTCAAAGCTAGTG
Found at i:2007559 original size:52 final size:52
Alignment explanation
Indices: 2007503--2007605 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
2007493 GTGTTGATTC
* * *
2007503 AAGGCCAGTGACTTTAGGCTTAAAGATGATAAGGGTGCCAATGTGCTAATTA
1 AAGGCCAGTGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTAATTA
* *
2007555 AAGGCTAGTGACATTAGACTTAAAGATGATAAAGGTGTCAATGTGCTAATT
1 AAGGCCAGTGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTAATT
2007606 CAAGACTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (52 bp):
AAGGCCAGTGACATTAGACTTAAAGATGATAAAGGTGCCAATGTGCTAATTA
Found at i:2007627 original size:52 final size:52
Alignment explanation
Indices: 2007516--2007617 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 52
2007506 GCCAGTGACT
* * * ***
2007516 TTAGGCTTAAAGATGATAAGGGTGCCAATGTGCTAATTAAAGGCTAGTGACA
1 TTAGACTTAAAGATGATAAAGGTGCCAATGTGCTAATTAAAGACTAACAACA
* *
2007568 TTAGACTTAAAGATGATAAAGGTGTCAATGTGCTAATTCAAGACTAACAA
1 TTAGACTTAAAGATGATAAAGGTGCCAATGTGCTAATTAAAGACTAACAA
2007618 TTTTGGACTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (52 bp):
TTAGACTTAAAGATGATAAAGGTGCCAATGTGCTAATTAAAGACTAACAACA
Found at i:2007766 original size:58 final size:58
Alignment explanation
Indices: 2007667--2007872 Score: 215
Period size: 58 Copynumber: 3.6 Consensus size: 58
2007657 TATATGCAAG
* * * * * *
2007667 GTGCTAATGTGCTGATTCAAGG-CAACGACATTAGGCTTTGAGGAAAAAAGTTTAACAG
1 GTGCCAATTTGCTAATTCAAGGCCAACAACATTAGGC-TTGAGGAAAAAAGTTTGACAA
* * *
2007725 GTGCCAGTTTGCTAATTCAAGGCCATCAACATTAGGCTTGAGG-AAGAAGATTTGACAA
1 GTGCCAATTTGCTAATTCAAGGCCAACAACATTAGGCTTGAGGAAAAAAG-TTTGACAA
* * * *
2007783 GTGCCAATTTGTTGATTCAAGGCCAACGACATTGGGCTTGA-GAATAAACA-TTTGACAA
1 GTGCCAATTTGCTAATTCAAGGCCAACAACATTAGGCTTGAGGAA-AAA-AGTTTGACAA
*
2007841 GTGCCAATTT-CTAATTCAAGGCCAGCAACATT
1 GTGCCAATTTGCTAATTCAAGGCCAACAACATT
2007873 GAGTTTAAAG
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
57 24 0.20
58 84 0.68
59 14 0.11
60 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (58 bp):
GTGCCAATTTGCTAATTCAAGGCCAACAACATTAGGCTTGAGGAAAAAAGTTTGACAA
Found at i:2007923 original size:51 final size:52
Alignment explanation
Indices: 2007854--2007963 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 52
2007844 CCAATTTCTA
* * * *
2007854 ATTCAAGGCCAGCAACATTGAG-TTTAAAGATGGTAAGG-TGTCAATGTGCTG
1 ATTCAAGACCAGCAACATTG-GCTTTAAAGATGATAAGGATGCCAATATGCTG
**
2007905 ATTCAAGACCAGTGACATTGGCTTTAAAGATGATAAGGATGCCAATATGCTG
1 ATTCAAGACCAGCAACATTGGCTTTAAAGATGATAAGGATGCCAATATGCTG
2007957 ATTCAAG
1 ATTCAAG
2007964 GTCAACGACA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
50 1 0.02
51 32 0.63
52 18 0.35
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (52 bp):
ATTCAAGACCAGCAACATTGGCTTTAAAGATGATAAGGATGCCAATATGCTG
Found at i:2007975 original size:52 final size:52
Alignment explanation
Indices: 2007841--2008093 Score: 214
Period size: 52 Copynumber: 4.9 Consensus size: 52
2007831 CATTTGACAA
* * * * *
2007841 GTGCCAAT-TTCTAATTCAAGGCCAGCAACATTGAG-TTTAAAGATGGT-AAG
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTG-GCTTTAAAGATGATAAAG
* * **
2007891 GTGTCAATGTGCTGATTCAAGACCAGTGACATTGGCTTTAAAGATGAT-AAG
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGCTTTAAAGATGATAAAG
* * * * *
2007942 GATGCCAATATGCTGATTCAAGGTCAACGACATTAGAC-TTAAATATGATAAAT
1 G-TGCCAATGTGCTGATTCAAGGCCAACGACATT-GGCTTTAAAGATGATAAAG
* * * ** *
2007995 GAGCCAATGTGTTGATCCAAGGCCAACGACAAAGGAC-TTAAGGATGATAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGG-CTTTAAAGATGATAAAG
* *
2008047 GTGCCAATGTGATGATTCAAGGCCAACGACATT-GCTCTAAAAGATGA
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGCT-TTAAAGATGA
2008094 GGATTTGATA
Statistics
Matches: 161, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
50 9 0.06
51 37 0.23
52 110 0.68
53 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGCTTTAAAGATGATAAAG
Found at i:2009468 original size:28 final size:28
Alignment explanation
Indices: 2009437--2009504 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
2009427 TTTTTTTGAT
*
2009437 TCCATTGGGGATTGTAGGCTGTTCAAAC
1 TCCATTGGGGATTGTAGGCTGTACAAAC
* * *
2009465 TCCACTGGGGGTTGTAGGTTGTACAAAC
1 TCCATTGGGGATTGTAGGCTGTACAAAC
* *
2009493 TTCATTAGGGAT
1 TCCATTGGGGAT
2009505 ATGATACAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (28 bp):
TCCATTGGGGATTGTAGGCTGTACAAAC
Found at i:2014021 original size:51 final size:50
Alignment explanation
Indices: 2013964--2014299 Score: 177
Period size: 51 Copynumber: 6.4 Consensus size: 50
2013954 CCTCGAAAAT
2013964 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
* * ** * *
2014014 AACCGGGGTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGGAGTATCCCCTCGAAA-AT
1 AA-CGGGGTTGGAGTATCCCCGATTGTGAAA-AA------T-CAGTAT--TTTGGAAATAA
*** *
2014071 AACGGGGTTGGAGTATCCCCGATTACAAAAAATCAGTGTTTTGGAAATAA
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
* * * *
2014121 AGCCGGGGTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGGAGTATCCTTT-CAAA-AA
1 A-ACGGGGTTGGAGTATCCCCGATTGTGAAA-AA------T-CAGTAT--TTTGGAAATAA
*
2014177 TAACGGGGTTGAAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
1 -AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
* * * * ** * *
2014228 AATGGGAGTTGGAGTATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAA
1 AACGGG-GTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
2014279 AACTGGGGTTGGAGTATCCCC
1 AAC-GGGGTTGGAGTATCCCC
2014300 TCAGAAATAA
Statistics
Matches: 214, Mismatches: 38, Indels: 67
0.67 0.12 0.21
Matches are distributed among these distances:
48 7 0.03
49 15 0.07
50 12 0.06
51 98 0.46
52 5 0.02
55 2 0.01
56 46 0.21
57 7 0.03
58 15 0.07
59 7 0.03
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (50 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAA
Found at i:2014048 original size:28 final size:28
Alignment explanation
Indices: 2014017--2014090 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
2014007 GAAATAAAAC
*
2014017 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
2014045 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
2014073 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2014091 GATTACAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:2014127 original size:107 final size:106
Alignment explanation
Indices: 2013934--2014247 Score: 502
Period size: 107 Copynumber: 2.9 Consensus size: 106
2013924 TTTGGAGATC
*
2013934 ATAATGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCA
1 ATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCA
2013999 GTATTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
66 GTATTTTGGAAAT-AAACCGGGGTTGGAGTATCCCCTCGGAA
***
2014041 ATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTACAAAAAATCA
1 ATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCA
*
2014106 GTGTTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAA
66 GTATTTTGGAAATAAA-CCGGGGTTGGAGTATCCCCTCGGAA
** * *
2014148 ATAACGGGGTTGGAGTATCCTTTCAAAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATCA
1 ATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCA
**
2014213 GTATTTTGGAAATAAAATGGGAGTTGGAGTATCCC
66 GTATTTTGGAAATAAACCGGG-GTTGGAGTATCCC
2014248 TGATTGTGGA
Statistics
Matches: 190, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
106 6 0.03
107 184 0.97
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (106 bp):
ATAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCA
GTATTTTGGAAATAAACCGGGGTTGGAGTATCCCCTCGGAA
Found at i:2014159 original size:28 final size:28
Alignment explanation
Indices: 2014124--2014197 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2014114 GAAATAAAGC
**
2014124 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
**
2014152 CGGGGTTGGAGTATCCTTTCAAAAATAA
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
*
2014180 CGGGGTTGAAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2014198 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:2014323 original size:79 final size:79
Alignment explanation
Indices: 2014231--2014409 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 79
2014221 GAAATAAAAT
* * * * *
2014231 GGGAGTTGGAGTATCCCTGATTGT-GGAGAATTGGTGTTTTAGAAATAAAACT-GGGGTTGGAGT
1 GGGA-TTGAAGTATCCCTGATTATAAGA-AATTAGTATTTTAGAAAT-AAACTCGGGGTTGGAGT
2014294 ATCCCCTCAGAAATAAC
63 ATCCCCTCAGAAATAAC
* * *
2014311 GGGATTGAAGTATCCCCGATTATAAGAAATTATTATTTTAGAAATAAAGTCGGGGTTGGAGTATC
1 GGGATTGAAGTATCCCTGATTATAAGAAATTAGTATTTTAGAAATAAACTCGGGGTTGGAGTATC
**
2014376 CCCTTGGAAATAAC
66 CCCTCAGAAATAAC
*
2014390 GGGGTT-AGAGTATCCCTGAT
1 GGGATTGA-AGTATCCCTGAT
2014410 GAAATAACGG
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
78 5 0.06
79 73 0.87
80 6 0.07
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (79 bp):
GGGATTGAAGTATCCCTGATTATAAGAAATTAGTATTTTAGAAATAAACTCGGGGTTGGAGTATC
CCCTCAGAAATAAC
Found at i:2014395 original size:28 final size:28
Alignment explanation
Indices: 2014361--2014432 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2014351 GAAATAAAGT
*
2014361 CGGGGTTGGAGTATCCCCTTG-GAAATAA
1 CGGGGTTAGAGTATCCCC-TGAGAAATAA
2014389 CGGGGTTAGAGTAT-CCCTGATGAAATAA
1 CGGGGTTAGAGTATCCCCTGA-GAAATAA
2014417 CGGGGTTAGAGTATCC
1 CGGGGTTAGAGTATCC
2014433 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 34 0.85
29 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTAGAGTATCCCCTGAGAAATAA
Found at i:2014419 original size:107 final size:107
Alignment explanation
Indices: 2014283--2014485 Score: 268
Period size: 107 Copynumber: 1.9 Consensus size: 107
2014273 AAATAAAACT
* *
2014283 GGGGTTGGAGTATCCCCTCAGAAATAACGGGATT-GAAGTATCCCCGATTAT-AAGAAATTATTA
1 GGGGTTAGAGTATCCCCTCAGAAATAACGGGATTAG-AGTATCCCCGATTATGAA-AAATTAGTA
* *
2014346 TTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTTGGAAATAAC
64 TTTTAGAAATAAAATCGGAGTTGGAGTATCCCCTTGGAAATAAC
* * * * *
2014390 GGGGTTAGAGTAT-CCCTGATGAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAAATTAGTGT
1 GGGGTTAGAGTATCCCCTCA-GAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTAGTAT
*
2014454 TTTGGAAATAAAATCGGAGTTGGAGTATCCCC
65 TTTAGAAATAAAATCGGAGTTGGAGTATCCCC
2014486 AATTGCGGGG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
106 5 0.06
107 75 0.90
108 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (107 bp):
GGGGTTAGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTAGTATT
TTAGAAATAAAATCGGAGTTGGAGTATCCCCTTGGAAATAAC
Found at i:2014461 original size:237 final size:237
Alignment explanation
Indices: 2014045--2014535 Score: 718
Period size: 237 Copynumber: 2.1 Consensus size: 237
2014035 TCGGAAATAA
* * *
2014045 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTACAAAAAATCAGTGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCCCGATTACAAAAAATCAGTAT
* * *
2014110 TTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTTTCAAA
66 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCTCTCAAA
*
2014175 AATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAATGGGAGTTGG
131 AATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAATCGGAGTTGG
** *
2014240 AGTATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
196 AGTATCCCCAATTGCGGAGAATTGGTGTTTTAGAAATAAAAC
* * * * *
2014282 TGGGGTTGGAGTATCCCCTC-AGAAATAACGGGATTGAAGTATCCCCGATTATAAGAAATTATTA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGATTGAAGTATCCCCGATTACAAAAAATCAGTA
* * *
2014346 TTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTAGAGTATCC-CTGAT
65 TTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCTCTCA-
* * * *
2014410 GAAATAACGGGGTT-AGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGT
129 AAAATAACGGGGTTGA-AGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAATCGGAGT
*
2014474 TGGAGTATCCCCAATTGCGGGGAATTGGTGTTTTAGAAATAAAAC
193 TGGAGTATCCCCAATTGCGGAGAATTGGTGTTTTAGAAATAAAAC
*
2014519 CGAGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
2014536 TGAGATAAAT
Statistics
Matches: 226, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
236 4 0.02
237 222 0.98
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (237 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGAAGTATCCCCGATTACAAAAAATCAGTAT
TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCTCTCAAA
AATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAATCGGAGTTGG
AGTATCCCCAATTGCGGAGAATTGGTGTTTTAGAAATAAAAC
Found at i:2014483 original size:51 final size:51
Alignment explanation
Indices: 2014420--2014535 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 51
2014410 GAAATAACGG
* * * * * *
2014420 GGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCG-
1 GGTTGGAGTATCCCCAATTGCGAAAAATTAGTGTTTTAGAAATAAAACCGA
*** *
2014470 GAGTTGGAGTATCCCCAATTGCGGGGAATTGGTGTTTTAGAAATAAAACCGA
1 G-GTTGGAGTATCCCCAATTGCGAAAAATTAGTGTTTTAGAAATAAAACCGA
2014522 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
2014536 TGAGATAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.02
51 52 0.96
52 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGCGAAAAATTAGTGTTTTAGAAATAAAACCGA
Found at i:2016923 original size:13 final size:13
Alignment explanation
Indices: 2016905--2016931 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2016895 ATACAAAGAT
2016905 CGATGTATCGATA
1 CGATGTATCGATA
2016918 CGATGTATCGATA
1 CGATGTATCGATA
2016931 C
1 C
2016932 ATTGAATAAT
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:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CGATGTATCGATA
Found at i:2017902 original size:42 final size:41
Alignment explanation
Indices: 2017803--2017902 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
2017793 CCGTTTTTTT
* *
2017803 AGGACAAAGGAAAAAGGAAAACGAAATACGTCCTGCTCTCTC
1 AGGACAAAAGAAAAAGGAAAAC-AAATACATCCTGCTCTCTC
* * * *
2017845 AGGATAAAAGAAAAAGGAAATA-AAATGCATCCTGCTCTTTG
1 AGGACAAAAGAAAAAGGAAA-ACAAATACATCCTGCTCTCTC
2017886 AGGACAAAAGAGAAAAG
1 AGGACAAAAGA-AAAAG
2017903 AAGGGAAGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 25 0.51
42 23 0.47
43 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (41 bp):
AGGACAAAAGAAAAAGGAAAACAAATACATCCTGCTCTCTC
Found at i:2018022 original size:61 final size:60
Alignment explanation
Indices: 2017923--2018828 Score: 624
Period size: 61 Copynumber: 15.2 Consensus size: 60
2017913 AGTGTTTTCC
* ** *
2017923 GCTCTTTGAGGA-TTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
*
2017984 GC-CGTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCATCCT
1 GCTC-TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAAGA-AAAGGCGTCCT
* * *
2018045 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCAT
1 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCT
* ** * * ****
2018106 GCTCTTTGAAGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCGAAAGGAGA
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAGGC----GTCCT
** * *** ** * * * ** **
2018170 GAGCATCCTGCTCTTTGAGTACTAGGAAGTGCCACCAACT-TGTGTGGGCTTTGCAAAA-AGAAA
1 GCTCTTTGAGGAC-TGGA-AAAT-GCCA---CCA--ACTTGTGT--GGGCTTT--AAAAGA-AAA
*
2018233 -GCATCCT
53 GGCGTCCT
* *
2018240 GCTCTTTGAGGACT-GAAAAGTGCCACCAATTTGTGTGGCCTTTAAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
* * *
2018301 GCCCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCATCCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAAGA-AAAGGCGTCCT
* *
2018362 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAAGGAAAGGCGTCCT
1 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
* *
2018423 GCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTT--AAG---AGGCGTCCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
*
2018478 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
* * * ** *
2018539 GCTTTTTGAGGATTAGAAAATGCCACCAACGCGTGTGGGCTTT----G-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* * *
2018594 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGAGTCCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* *
2018649 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
*** *
2018704 GCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT-----AAAAGGCGTCCT
1 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
* *
2018759 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
*
2018814 GCTCTTTAAGGACTG
1 GCTCTTTGAGGACTG
2018829 AAGGGTGAAA
Statistics
Matches: 688, Mismatches: 104, Indels: 111
0.76 0.12 0.12
Matches are distributed among these distances:
54 5 0.01
55 258 0.38
56 3 0.00
58 6 0.01
59 5 0.01
60 57 0.08
61 270 0.39
62 32 0.05
63 3 0.00
64 7 0.01
65 1 0.00
66 2 0.00
67 4 0.01
68 5 0.01
69 1 0.00
70 5 0.01
71 3 0.00
72 3 0.00
73 1 0.00
74 10 0.01
75 3 0.00
76 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (60 bp):
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
Found at i:2018075 original size:122 final size:119
Alignment explanation
Indices: 2017923--2018828 Score: 742
Period size: 122 Copynumber: 7.6 Consensus size: 119
2017913 AGTGTTTTCC
* ** * *
2017923 GCTCTTTGAGGATTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGCGTCCCGC-C
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTGCTC
*
2017987 GTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCT
65 -TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAAAGAAAGCGTCCT
* *
2018045 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCATGCTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCATCCTGCTC
* ** * * * *
2018110 TTTGAAGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCGAAAGGAGAGAGC
65 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAA---G-AA--AGCG-TC
*
2018174 AT
118 CT
* * ** * * * * *
2018176 CCTGCTCT-TTGAGT-ACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCAT
1 GCT-CTTTGAGGACTGA-AAAG-TGC--CACCAACTTGTGTGGGCTTT--AAAAGA-AAAGGCAT
* *
2018237 CCTGCTCTTTGAGGACT-GAAAAGTGCCACCAATTTGTGTGGCCTTTAAAAAGAAAAGGCGTCCT
58 CCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAG-AAA-GCGTCCT
* *
2018301 GCCCTTTGAGGACTG-GAAGATGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCATCCTG
1 GCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTT--AAAAGA-AAAGGCATCCTG
*
2018363 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAAGGAAAGGCGTCCT
62 CTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAA-GAAA-GCGTCCT
* * *
2018423 GCTCTTTGAGGATTGGAAAA-TGCCACTAACTTGTGTGGGCTTT--AAG---AGGCGTCCTGCTC
1 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
*
2018482 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCT
65 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAG-AAA-GCGTCCT
* * **
2018539 GCTTTTTGAGGATTAGAAAA-TGCCACCAACGCGTGTGGGCTTT----G-AAAGGCATCCTGCTC
1 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTC
* * *
2018598 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG---GAGTCCT
65 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCGTCCT
*
2018649 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTGCTCT
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCT
*** *
2018709 TTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAG---GCGTCCT
66 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCGTCCT
*
2018759 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTGCTCT
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCT
*
2018819 TTAAGGACTG
66 TTGAGGACTG
2018829 AAGGGTGAAA
Statistics
Matches: 671, Mismatches: 79, Indels: 80
0.81 0.10 0.10
Matches are distributed among these distances:
109 4 0.01
110 170 0.25
114 1 0.00
115 7 0.01
116 144 0.21
117 5 0.01
118 2 0.00
121 28 0.04
122 188 0.28
123 3 0.00
124 14 0.02
125 7 0.01
126 2 0.00
127 5 0.01
128 2 0.00
130 8 0.01
131 9 0.01
132 4 0.01
134 43 0.06
135 21 0.03
136 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (119 bp):
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCT
TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCGTCCT
Found at i:2018498 original size:55 final size:56
Alignment explanation
Indices: 2018175--2018828 Score: 646
Period size: 55 Copynumber: 11.3 Consensus size: 56
2018165 GGAGAGAGCA
* * * *
2018175 TCCTGCTCTTTGAGTACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT----AAAG-AGGCG
* *
2018236 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAATTTGTGTGGCCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT--AAAG---AGGCG
* * * *
2018297 TCCTGCCCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----AAAG-AGGCG
*
2018358 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT--AAA-G--AGGCG
* *
2018419 TCCTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
*
2018474 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAG---AGGCG
* * * ** * *
2018535 TCCTGCTTTTTGAGGATTAGAAAATGCCACCAACGCGTGTGGGCTTTGAA-AGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * *
2018590 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA-AGGAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * *
2018645 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
*** *
2018700 TCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAA-AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * *
2018755 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
*
2018810 TCCTGCTCTTTAAGGACTG
1 TCCTGCTCTTTGAGGACTG
2018829 AAGGGTGAAA
Statistics
Matches: 516, Mismatches: 56, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
54 5 0.01
55 256 0.50
56 2 0.00
57 1 0.00
58 5 0.01
59 14 0.03
60 7 0.01
61 211 0.41
62 9 0.02
63 6 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
Found at i:2018697 original size:110 final size:111
Alignment explanation
Indices: 2018175--2018828 Score: 733
Period size: 110 Copynumber: 5.7 Consensus size: 111
2018165 GGAGAGAGCA
* * *
2018175 TCCTGCTCTTTGAGTACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG---AAAG---GCATCCT
* * * *
2018240 GCTCTTTGAGGACTGAAAAGTGCCACCAATTTGTGTGGCCTTTAAAAAGAAAAGGCG
60 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----A-AAAAGGAG
* * *
2018297 TCCTGCCCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG---AAAG---GCATCCT
* *
2018362 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAAGGAAAGGCG
60 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGG--A---G
* * * *
2018419 TCCTGCTCTTTGAGGATTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATCCTGCTCT
* *
2018483 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTG
65 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----A-AAAAGGAG
* * **
2018535 TCCTGCTTTTTGAGGATTAGAAAATGCCACCAACGCGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
*
2018600 TGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAG
66 TGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAG
*
2018645 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
** * *
2018709 TTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT-AAAAGGCG
65 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAG
*
2018755 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
*
2018819 TTAAGGACTG
65 TTGAGGACTG
2018829 AAGGGTGAAA
Statistics
Matches: 480, Mismatches: 39, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
109 4 0.01
110 175 0.36
116 138 0.29
117 8 0.02
118 3 0.01
119 2 0.00
120 1 0.00
121 6 0.01
122 143 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (111 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
TGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAG
Found at i:2019931 original size:9 final size:10
Alignment explanation
Indices: 2019904--2019930 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2019894 CTTTCCTCTC
2019904 TTTTTTTTGT
1 TTTTTTTTGT
2019914 TTTTTTTTGT
1 TTTTTTTTGT
2019924 TTTTTTT
1 TTTTTTT
2019931 GAAAAGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:2022512 original size:15 final size:14
Alignment explanation
Indices: 2022489--2022518 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2022479 GGAAAAGCAG
2022489 AAAAAATGTGTGTT
1 AAAAAATGTGTGTT
2022503 AAAAACATGTGTGTT
1 AAAAA-ATGTGTGTT
2022518 A
1 A
2022519 GCATGATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (14 bp):
AAAAAATGTGTGTT
Found at i:2022712 original size:13 final size:13
Alignment explanation
Indices: 2022694--2022785 Score: 73
Period size: 13 Copynumber: 8.0 Consensus size: 13
2022684 ACAAAGATCG
2022694 ATGTATCGATACA
1 ATGTATCGATACA
2022707 ATGTATCGATAC-
1 ATGTATCGATACA
*
2022719 ----ATCGA-ATA
1 ATGTATCGATACA
2022727 ATGTATCGATACA
1 ATGTATCGATACA
2022740 ATGTATCGATAC-
1 ATGTATCGATACA
*
2022752 ----ATCGA-ATA
1 ATGTATCGATACA
*
2022760 ATGTATTGATACA
1 ATGTATCGATACA
2022773 ATGTATCGATACA
1 ATGTATCGATACA
2022786 TCGAATACTG
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
7 2 0.03
8 10 0.16
12 9 0.15
13 40 0.66
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2022716 original size:33 final size:33
Alignment explanation
Indices: 2022694--2022802 Score: 200
Period size: 33 Copynumber: 3.3 Consensus size: 33
2022684 ACAAAGATCG
2022694 ATGTATCGATACAATGTATCGATACATCGAATA
1 ATGTATCGATACAATGTATCGATACATCGAATA
2022727 ATGTATCGATACAATGTATCGATACATCGAATA
1 ATGTATCGATACAATGTATCGATACATCGAATA
*
2022760 ATGTATTGATACAATGTATCGATACATCGAATA
1 ATGTATCGATACAATGTATCGATACATCGAATA
*
2022793 CTGTATCGAT
1 ATGTATCGAT
2022803 CCATTTCCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACATCGAATA
Found at i:2022731 original size:20 final size:20
Alignment explanation
Indices: 2022706--2022802 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 20
2022696 GTATCGATAC
2022706 AATGTATCGATACATCGAAT
1 AATGTATCGATACATCGAAT
2022726 AATGTATCGAT--A-C----
1 AATGTATCGATACATCGAAT
2022739 AATGTATCGATACATCGAAT
1 AATGTATCGATACATCGAAT
*
2022759 AATGTATTGAT--A-C----
1 AATGTATCGATACATCGAAT
2022772 AATGTATCGATACATCGAAT
1 AATGTATCGATACATCGAAT
*
2022792 ACTGTATCGAT
1 AATGTATCGAT
2022803 CCATTTCCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 28
0.66 0.03 0.31
Matches are distributed among these distances:
13 21 0.35
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
20 31 0.52
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATCGAAT
Found at i:2025948 original size:13 final size:13
Alignment explanation
Indices: 2025930--2025955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2025920 ATAAAGATCC
2025930 ATGTATCGATACA
1 ATGTATCGATACA
2025943 ATGTATCGATACA
1 ATGTATCGATACA
2025956 TTTCGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2025967 original size:20 final size:20
Alignment explanation
Indices: 2025942--2025979 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2025932 GTATCGATAC
2025942 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
2025962 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
2025980 CTTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:2026031 original size:19 final size:19
Alignment explanation
Indices: 2026007--2026091 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
2025997 AGTGATACAT
2026007 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2026026 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2026039 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
* *
2026058 TGTATCGATACAATTACTGTT
1 TGTATCGATACAA-CACT-TA
2026079 TGTATCGATACAA
1 TGTATCGATACAA
2026092 ATTATTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 6 0.11
18 1 0.02
19 22 0.39
20 3 0.05
21 14 0.25
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2026041 original size:32 final size:32
Alignment explanation
Indices: 2026000--2026069 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
2025990 GCTTCATAGT
2026000 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
2026032 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
2026064 GATACA
1 GATACA
2026070 ATTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:2026044 original size:13 final size:13
Alignment explanation
Indices: 2026026--2026050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2026016 ACAACACTTA
2026026 TGTATCGATACAT
1 TGTATCGATACAT
2026039 TGTATCGATACA
1 TGTATCGATACA
2026051 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2027480 original size:23 final size:22
Alignment explanation
Indices: 2027446--2027489 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2027436 CCTCTCAATC
*
2027446 TTTTTAAGAATTATACCCCAAA
1 TTTTTAAGAATTATAACCCAAA
*
2027468 TTTTTAAGAAATTGTAACCCAA
1 TTTTTAAG-AATTATAACCCAA
2027490 GGTGGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (22 bp):
TTTTTAAGAATTATAACCCAAA
Found at i:2030332 original size:101 final size:99
Alignment explanation
Indices: 2030166--2030961 Score: 943
Period size: 101 Copynumber: 8.0 Consensus size: 99
2030156 CAAAGAATGA
* * * * * **
2030166 CAATGTGCTGATTCATGGCCAGCGACATTTAGACTTGAAGA--AAA-ATGCCAATGTGCTGAGGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTC
* * * *
2030228 AAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
65 AAGGCCAGCGATATTGGACTTA--AA-GATGAAGATGC
** * * * *
2030266 CAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATG-AAGGTGCCAATGTGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
*
2030330 AGGACCAGTGATATTGGACTTAAAGATGAAGATGC
66 AGG-CCAGCGATATTGGACTTAAAGATGAAGATGC
*
2030365 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA--AAGGTGCCAATATGCTGATT
*
2030430 CAAGGCCAGTGATATTGGACTTAAAGATGAAGATGC
64 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
* *
2030466 CAATGTGCTGATTCAAGGCCAGCGACATTGGACATAAAGATGACAAAGGAGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATT
*
2030531 CAAGGCCAGCGATACTGGACTTAAAGATGAAGATGC
64 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
* * *
2030567 CAATGTGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATT
2030632 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
64 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
* *
2030668 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATT
**
2030733 CAAGGCCAGCGATACCGGACTT----A--AAGATGC
64 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
* * * * * *
2030763 CAAAGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAAATGATAAAGGCGCTAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATT
* * * *
2030828 TAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGC
64 CAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
* * * * *
2030864 TAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAAGATGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
* *
2030928 AGGCCAGCAATATTGGACGTAAA-A-GAAGATGC
66 AGGCCAGCGATATTGGACTTAAAGATGAAGATGC
2030960 CA
1 CA
2030962 CCAACTTGTG
Statistics
Matches: 611, Mismatches: 70, Indels: 34
0.85 0.10 0.05
Matches are distributed among these distances:
95 80 0.13
96 8 0.01
97 2 0.00
98 38 0.06
99 56 0.09
100 26 0.04
101 361 0.59
102 39 0.06
103 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (99 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGACTTAAAGATGAAGATGC
Found at i:2030434 original size:52 final size:51
Alignment explanation
Indices: 2030166--2030950 Score: 710
Period size: 49 Copynumber: 15.7 Consensus size: 51
2030156 CAAAGAATGA
* * * * *
2030166 CAATGTGCTGATTCATGGCCAGCGACATTTAGACTTGAAGA--A-AA-ATGC
1 CAATATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGAGAAGGTGC
* ** * * *
2030214 CAATGTGCTGAGGCAAGGCCAGCGACATTGGGCTTAGGAATG-TTA-AAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAGAAGGTGC
* * * *
2030266 CAATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
2030315 CAATGTGCTGATTCAAGGACCAGTGATATTGGACTTAAAGAT--GAAGATGC
1 CAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* *
2030365 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * *
2030417 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT--GAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
2030466 CAATGTGCTGATTCAAGGCCAGCGACATTGGACATAAAGATGACAAAGGAGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * *
2030518 CAATATGCTGATTCAAGGCCAGCGATACTGGACTTAAAGAT--GAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * * *
2030567 CAATGTGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGAGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* *
2030619 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
2030668 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* **
2030720 CAATATGCTGATTCAAGGCCAGCGATACCGGACTT--A-A--AG-A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * * *
2030763 CAA-AGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAAATGATAAAGGCGC
1 CAATA-TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * *
2030815 TAATATGCTGATTTAAGGCCAGCGACATTGGGCTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * * * *
2030864 TAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CA-AAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * *
2030913 CAATATGCTGATTCAAGGCCAGCAATATTGGACGTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
2030951 AGAAGATGCC
Statistics
Matches: 605, Mismatches: 98, Indels: 67
0.79 0.13 0.09
Matches are distributed among these distances:
42 1 0.00
43 31 0.05
45 2 0.00
46 1 0.00
47 7 0.01
48 25 0.04
49 253 0.42
50 49 0.08
51 3 0.00
52 232 0.38
53 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (51 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
Found at i:2031055 original size:27 final size:27
Alignment explanation
Indices: 2031025--2031127 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 27
2031015 GAGAAAGATA
2031025 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
2031052 CCACGGAGTTGTAGGACTTAAAAAGGTG
1 CCACGGAGTTGT-GGACTTAAAAGGGTG
* *
2031080 CCACGAAGTTGTGGACTTGAAAAGAGATG
1 CCACGGAGTTGTGGACTT-AAAAG-GGTG
**
2031109 CCATTGAGTTGTGGACTTA
1 CCACGGAGTTGTGGACTTA
2031128 CAGGAAAAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 18 0.27
28 30 0.45
29 18 0.27
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (27 bp):
CCACGGAGTTGTGGACTTAAAAGGGTG
Found at i:2031079 original size:28 final size:27
Alignment explanation
Indices: 2031025--2031200 Score: 136
Period size: 33 Copynumber: 5.9 Consensus size: 27
2031015 GAGAAAGATA
*
2031025 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAAGGTG
2031052 CCACGGAGTTGTAGGACTTAAAAAGGTG
1 CCACGGAGTTGT-GGACTTAAAAAGGTG
* *
2031080 CCACGAAGTTGTGGACTTGAAAAGAGATG
1 CCACGGAGTTGTGGACTT-AAAA-AGGTG
**
2031109 CCATTGAGTTGTGGACTTACAGGAAAAAGGGATG
1 CCACGGAGTTGTGGACTT-----AAAAA-GG-TG
*
2031143 CCACTGAGTTGTGGACTTTGAAGGAAAGAGATG
1 CCACGGAGTTGTGGAC-TT-AA--AAAG-G-TG
*
2031176 CCACTGAGTTGTGGACTTTAAAAAG
1 CCACGGAGTTGTGGAC-TTAAAAAG
2031201 AAAAAGAGTG
Statistics
Matches: 128, Mismatches: 8, Indels: 23
0.81 0.05 0.14
Matches are distributed among these distances:
27 18 0.14
28 29 0.23
29 19 0.15
30 4 0.03
31 3 0.02
32 4 0.03
33 32 0.25
34 17 0.13
35 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (27 bp):
CCACGGAGTTGTGGACTTAAAAAGGTG
Found at i:2031143 original size:34 final size:33
Alignment explanation
Indices: 2031098--2031473 Score: 186
Period size: 34 Copynumber: 11.5 Consensus size: 33
2031088 TTGTGGACTT
*
2031098 GAAAAGAGATGCCATTGAGTTGTGGACTT-ACAG
1 GAAAAGAGATGCCACTGAGTTGTGGACTTGA-AG
*
2031131 GAAAAAGGGATGCCACTGAGTTGTGGACTTTGAAG
1 G-AAAAGAGATGCCACTGAGTTGTGGAC-TTGAAG
* *
2031166 G-AAAGAGATGCCACTGAGTTGTGGACTTTAAAAA
1 GAAAAGAGATGCCACTGAGTTGTGGAC-TT-GAAG
* * * *
2031200 GAAAA-AGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAGAGA-TGCCACTGAGTTGTGGAC-TT-GAAG
* * *
2031235 GAAAA-AGGTGCCACAGAGTTGTGGACTTGAAAA
1 GAAAAGAGATGCCACTGAGTTGTGGACTTG-AAG
* * * * *
2031268 GAAAA-AGAGTGTCACAGAGTTATGGGCTTAAAAG
1 GAAAAGAGA-TGCCACTGAGTTGTGGACTT-GAAG
2031302 GAACAAG-G-TGCCAC-GAAGTTGTGGACTT----
1 GAA-AAGAGATGCCACTG-AGTTGTGGACTTGAAG
* * * * *
2031330 TAAAAG-GATGCCACGGAGTTATGGGCTTTGAAAA
1 GAAAAGAGATGCCACTGAGTTGTGGAC-TTG-AAG
* * *
2031364 GAAAA-AGGTGCCACGGAGTTGTGGGCTTTGAA-
1 GAAAAGAGATGCCACTGAGTTGTGGAC-TTGAAG
* *
2031396 G-AAA-AGATGCCACTGAGTCGTGGACTT---T
1 GAAAAGAGATGCCACTGAGTTGTGGACTTGAAG
*
2031424 GAAAAGAGATTGCCACTGAGTTGTGGACTTTGGA-
1 GAAAAGAGA-TGCCACTGAGTTGTGGAC-TTGAAG
2031458 GAAAA-A-ATGCCACTGA
1 GAAAAGAGATGCCACTGA
2031474 ATCGTGGATT
Statistics
Matches: 283, Mismatches: 31, Indels: 60
0.76 0.08 0.16
Matches are distributed among these distances:
27 4 0.01
28 17 0.06
29 6 0.02
30 5 0.02
31 46 0.16
32 5 0.02
33 58 0.20
34 99 0.35
35 42 0.15
36 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (33 bp):
GAAAAGAGATGCCACTGAGTTGTGGACTTGAAG
Found at i:2031407 original size:31 final size:31
Alignment explanation
Indices: 2031072--2031551 Score: 293
Period size: 31 Copynumber: 15.1 Consensus size: 31
2031062 GTAGGACTTA
*
2031072 AAAAGGTGCCAC-GAAGTTGTGGAC-TTGAA-
1 AAAAGATGCCACTG-AGTTGTGGACTTTGAAG
* * ** *
2031101 AAGAGATGCCATTGAGTTGTGGACTTACAGG
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
2031132 AAAAAGGGATGCCACTGAGTTGTGGACTTTGAAGG
1 -AAAA--GATGCCACTGAGTTGTGGACTTTGAA-G
*
2031167 AAAGAGATGCCACTGAGTTGTGGACTTTAAAAAG
1 AAA-AGATGCCACTGAGTTGTGGACTTT--GAAG
* * *
2031201 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 -AAAAGA-TGCCACTGAGTTGTGGACTTT--GAAG
* *
2031236 AAAAAGGTGCCACAGAGTTGTGGAC-TTGAAAAG
1 -AAAAGATGCCACTGAGTTGTGGACTTTG--AAG
* * * * **
2031269 AAAAAGAGTGTCACAGAGTTATGGGCTTAAAAGG
1 -AAAAGA-TGCCACTGAGTTGTGGACTTTGAA-G
*
2031303 AACAAGGTGCCAC-GAAGTTGTGGACTTT--A-
1 AA-AAGATGCCACTG-AGTTGTGGACTTTGAAG
* * * *
2031332 AAAGGATGCCACGGAGTTATGGGCTTTGAAAAG
1 AAAAGATGCCACTGAGTTGTGGACTTTG--AAG
* * *
2031365 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 -AAAAGATGCCACTGAGTTGTGGACTTTGAAG
*
2031397 AAAAGATGCCACTGAGTCGTGGACTTTGAA-
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* *
2031427 AAGAGATTGCCACTGAGTTGTGGACTTTGGAG
1 AAAAGA-TGCCACTGAGTTGTGGACTTTGAAG
* * * * *
2031459 AAAAAATGCCACTGAATCGTGGATTTTG-GG
1 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
* *
2031489 ACAAA-ATGCCACTGAGTCGTGGGCTTTG-AG
1 A-AAAGATGCCACTGAGTTGTGGACTTTGAAG
* *
2031519 AAGAGATTGCCACTGAGTCGTGGACTTT-AAG
1 AAAAGA-TGCCACTGAGTTGTGGACTTTGAAG
2031550 AA
1 AA
2031552 GGTATTTGAA
Statistics
Matches: 364, Mismatches: 55, Indels: 62
0.76 0.11 0.13
Matches are distributed among these distances:
28 19 0.05
29 24 0.07
30 33 0.09
31 95 0.26
32 12 0.03
33 53 0.15
34 89 0.24
35 39 0.11
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTTGTGGACTTTGAAG
Found at i:2031455 original size:62 final size:61
Alignment explanation
Indices: 2031018--2031546 Score: 275
Period size: 62 Copynumber: 8.4 Consensus size: 61
2031008 TGAAAAGGAG
* * ** *
2031018 AAAGATACCACGGAGTTGTGGAC-TT-AAAAG-GGTGCCACGGAGTTGTAGGAC-TT--A-A
1 AAAGATGCCACTGAGTTGTGGACTTTGAAAAGAAATGCCACTGAGTTGT-GGACTTTGAAGA
* * * ** *
2031073 AAAGGTGCCAC-GAAGTTGTGGAC-TTGAAAAGAGATGCCATTGAGTTGTGGACTTACAGGAA
1 AAAGATGCCACTG-AGTTGTGGACTTTGAAAAGAAATGCCACTGAGTTGTGGACTTTGAAG-A
* *
2031134 AAAGGGATGCCACTGAGTTGTGGACTTTGAAGGAAAGAGATGCCACTGAGTTGTGGACTTTAAAA
1 AAA--GATGCCACTGAGTTGTGGACTTTG-A--AAAGAAATGCCACTGAGTTGTGGACTTT--GA
2031199 AGAA
59 AG-A
* * * *
2031203 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TTGAAA
1 AAAGA-TGCCACTGAGTTGTGGACTTTGAAAAG--AAA--TGCCACTGAGTTGTGGACTTTG--A
2031267 AGAA
59 AG-A
* * * *
2031271 AAAGAGTGTCACAGAGTTATGGGC-TT-AAAAGGAACAAGGTGCCAC-GAAGTTGTGGACTTT--
1 AAAGA-TGCCACTGAGTTGTGGACTTTGAAAA-G-A-AA--TGCCACTG-AGTTGTGGACTTTGA
2031331 A-A
59 AGA
* * * * * *
2031333 AAGGATGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAAGATGCCACTGAGTTGTGGACTTTGAAAAG--AAA--TGCCACTGAGTTGTGGACTTTGAAGA
* * *
2031398 AAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGA
1 AAAGATGCCACTGAGTTGTGGACTTTGAAAAGA-AATGCCACTGAGTTGTGGACTTTGAAGA
* * * * * * * *
2031460 AAAAATGCCACTGAATCGTGGATTTTGGGACA-AAATGCCACTGAGTCGTGGGCTTTG-AGA
1 AAAGATGCCACTGAGTTGTGGACTTT-GAAAAGAAATGCCACTGAGTTGTGGACTTTGAAGA
* *
2031520 AGAGATTGCCACTGAGTCGTGGACTTT
1 AAAGA-TGCCACTGAGTTGTGGACTTT
2031547 AAGAAGGTAT
Statistics
Matches: 390, Mismatches: 46, Indels: 70
0.77 0.09 0.14
Matches are distributed among these distances:
54 1 0.00
55 21 0.05
56 9 0.02
57 14 0.04
60 6 0.02
61 60 0.15
62 77 0.20
63 28 0.07
64 7 0.02
65 33 0.08
66 7 0.02
67 54 0.14
68 49 0.13
69 24 0.06
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.23
Consensus pattern (61 bp):
AAAGATGCCACTGAGTTGTGGACTTTGAAAAGAAATGCCACTGAGTTGTGGACTTTGAAGA
Found at i:2034473 original size:20 final size:21
Alignment explanation
Indices: 2034443--2034482 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2034433 TTTGTGCTTT
2034443 TTCAGATGTATCGATACATTG
1 TTCAGATGTATCGATACATTG
2034464 TTCA-ATGTATCGATACATT
1 TTCAGATGTATCGATACATT
2034483 CTGAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCGATACATTG
Found at i:2040482 original size:19 final size:20
Alignment explanation
Indices: 2040454--2040503 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2040444 CTTTTTAAAG
* *
2040454 TGTATTGATACTATG-AACA
1 TGTATCGATACTAAGCAACA
*
2040473 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAACA
2040493 TGTATCGATAC
1 TGTATCGATAC
2040504 ATCTGGGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
TGTATCGATACTAAGCAACA
Found at i:2041699 original size:15 final size:15
Alignment explanation
Indices: 2041679--2041708 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2041669 TATGTGTGTG
2041679 TGTATATATATATAT
1 TGTATATATATATAT
2041694 TGTATATATATATAT
1 TGTATATATATATAT
2041709 AGTGATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TGTATATATATATAT
Found at i:2050094 original size:142 final size:147
Alignment explanation
Indices: 2049805--2050120 Score: 317
Period size: 142 Copynumber: 2.1 Consensus size: 147
2049795 AGAAAACCAT
* *
2049805 AGAAATATTAGAAATCTTGAAAAATTAAGATAATAAATTTTATTTGATTTAAAATTTTTTTATTT
1 AGAAATATTAGAAAT-TTGAAAAATTAAGAAAATAAA-TTTATTTGATTT-AAATTTTTTAATTT
* * * * *
2049870 CCAAAAAAAATTCATTTCTTATCTTAATGGATAACCGAAAAGATATGAAAAATTTTAAAGATTTC
63 CCAAAAAAAATTCATTTCATACCTTAATGGAGAACCG-AAAGATATCAAAAATTTTAAAAATTTC
* ** * * *
2049935 TTTACCCTTACATATACCTAT
127 TATACCCCCACAGATACCCAC
*
2049956 GGAAATATTAGAAATTATAGAAAAATTAAGAAAAT-AA-TT-TTT-ATTT-AATTTTTTAATTTC
1 AGAAATATTAGAAATT-T-GAAAAATTAAGAAAATAAATTTATTTGATTTAAATTTTTTAATTTC
* *
2050016 CAAAAAAAA-TCATTTCATACCTTAATGGAGAATCG-AAGATA-CAAAGAGTTTTAAAAATTT-T
64 CAAAAAAAATTCATTTCATACCTTAATGGAGAACCGAAAGATATCAAA-AATTTTAAAAATTTCT
* *
2050077 CATACCCCCGCGGATACCCAC
128 -ATACCCCCACAGATACCCAC
*
2050098 AGAAATATTAAAAATTTTGAAAA
1 AGAAATATTAGAAA-TTTGAAAA
2050121 TTGAGGTGAT
Statistics
Matches: 140, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
141 9 0.06
142 43 0.31
143 2 0.01
144 22 0.16
145 22 0.16
147 4 0.03
148 3 0.02
149 2 0.01
150 1 0.01
151 17 0.12
152 15 0.11
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (147 bp):
AGAAATATTAGAAATTTGAAAAATTAAGAAAATAAATTTATTTGATTTAAATTTTTTAATTTCCA
AAAAAAATTCATTTCATACCTTAATGGAGAACCGAAAGATATCAAAAATTTTAAAAATTTCTATA
CCCCCACAGATACCCAC
Found at i:2051074 original size:19 final size:19
Alignment explanation
Indices: 2051046--2051082 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2051036 TTTTTCCTTA
*
2051046 TTTTCTTTCTTTCTTCTTT
1 TTTTCCTTCTTTCTTCTTT
*
2051065 TTTTCCTTCTTTTTTCTT
1 TTTTCCTTCTTTCTTCTT
2051083 CTCTCCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCCTTCTTTCTTCTTT
Found at i:2051084 original size:25 final size:26
Alignment explanation
Indices: 2051024--2051084 Score: 65
Period size: 28 Copynumber: 2.4 Consensus size: 26
2051014 CAACTCAAGC
*
2051024 TTTTTC-T-TTCTATTTTTCCTTATT
1 TTTTTCTTCTTCTATTTTTCCTTACT
*
2051048 TTCTTTCTTTCTTCTTTTTTTCCTT-CT
1 TT-TTTC-TTCTTCTATTTTTCCTTACT
2051075 TTTTTCTTCT
1 TTTTTCTTCT
2051085 CTCCCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 2 0.06
25 8 0.26
26 4 0.13
27 4 0.13
28 13 0.42
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTCTTCTTCTATTTTTCCTTACT
Found at i:2051092 original size:28 final size:28
Alignment explanation
Indices: 2051036--2051094 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
2051026 TTTCTTTCTA
* *
2051036 TTTTTCCTTATTTTCTTTCTTTCTTCTT
1 TTTTTCCTTACTTTCTTTCTTTCTCCTT
*
2051064 TTTTTCCTT-CTTT-TTTCTTCTCTCCCT
1 TTTTTCCTTACTTTCTTTCTT-TCTCCTT
2051091 TTTT
1 TTTT
2051095 CCTACTAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 12 0.44
28 9 0.33
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTTCCTTACTTTCTTTCTTTCTCCTT
Found at i:2051427 original size:21 final size:21
Alignment explanation
Indices: 2051401--2051449 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2051391 AAAATAAATT
*
2051401 AATTAATAAA-ATTAAATTTAA
1 AATTAA-AAAGATTAAAATTAA
*
2051422 AATTAAAAAGGTTAAAATTAA
1 AATTAAAAAGATTAAAATTAA
*
2051443 AAATAAA
1 AATTAAA
2051450 TTCTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
AATTAAAAAGATTAAAATTAA
Found at i:2051909 original size:165 final size:165
Alignment explanation
Indices: 2051580--2052287 Score: 806
Period size: 165 Copynumber: 4.3 Consensus size: 165
2051570 TGAAATAATT
** * * *
2051580 TGAATTTTTCTAAACTAATTTAATGTGAATTTAATAACAAT-TTTAGATGAATTTTAAAAATT-T
1 TGAATTTTTAAAAACTAATTTAATATGAATTAAATAATAATATTT-GATGAATTTTAAAAATTAT
* ** *
2051643 TAACCAAGAAAAATCCCTTCTAAAACATTTATGGAGTAGAAAACTCTATTTTTCGAAAATAAG-A
65 AAACCAAGAAAAATCCCCCCAAAAACATTTATGGAGTAGAAAACTCTATTTTT-GAAAATAAGAA
* * *
2051707 GAATTTCAAGGAAAAAATGAAAAA-TGAATGAAAATGAA
129 GAATTTTAAAG-AAAAATGAAAAACT-CATGAAAATGAA
* * * *
2051745 TGAATTTTTAAAAACTGATATAATATGAATTAAATAATAATATTTGACGAATTTGAAAAATTATA
1 TGAATTTTTAAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTATA
* ** * * * * *
2051810 AATCAAGAAAAATCCCCCTGAAAACATTTATGGAGTAAAAAAATTTGCTTTTTGAAAATAAGGA-
66 AACCAAGAAAAATCCCCCCAAAAACATTTATGGAGTAGAAAACTCT-ATTTTTGAAAATAAGAAG
2051874 AATTTTAAAGAAAAATGAAAAACTCATGAAAATGAA
130 AATTTTAAAGAAAAATGAAAAACTCATGAAAATGAA
2051910 TGAATTTTTAAAAA-TGAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAT
1 TGAATTTTTAAAAACT-AATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAT
** * *
2051974 AAACCAAGAAAAATCCCCCCAAAAACATTTACAGAGCAGAAAACTCTATTTTTTAGAAATAA-AA
65 AAACCAAGAAAAATCCCCCCAAAAACATTTATGGAGTAGAAAACTCTATTTTTGA-AAATAAGAA
* * * *
2052038 AAATTTCAAGAAAAAAAATAAAAAACTCATGAAAATGAA
129 GAATTT-TA-AAGAAAAATGAAAAACTCATGAAAATGAA
* ** * * *
2052077 TAAATTTTCGAAACCTAATTTAATATAAATTAAATAATAATATTTGATGAGTTTTAAAAATTATA
1 TGAATTTTTAAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTATA
* * *
2052142 AACTAAAAAAAATCCCCCCCAAAAATATTTATGGAGTAGAAAACTCCT-TATTTTGAAAAT-AGA
66 AACCAAGAAAAAT-CCCCCCAAAAACATTTATGGAGTAGAAAACT-CTAT-TTTTGAAAATAAGA
* * *
2052205 AGAATTTTAAGAGAAAAAAGAAAAACTTATAAAAATGAA
128 AGAATTTTAA-AGAAAAATGAAAAACTCATGAAAATGAA
* *
2052244 TGAATTTTTCAAAACTAATTTAATGGTG-ATTAAATAATAATATT
1 TGAATTTTTAAAAACTAATTTAAT-ATGAATTAAATAATAATATT
2052288 GAAAGAATTT
Statistics
Matches: 459, Mismatches: 67, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
164 8 0.02
165 179 0.39
166 62 0.14
167 162 0.35
168 41 0.09
169 7 0.02
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (165 bp):
TGAATTTTTAAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTATA
AACCAAGAAAAATCCCCCCAAAAACATTTATGGAGTAGAAAACTCTATTTTTGAAAATAAGAAGA
ATTTTAAAGAAAAATGAAAAACTCATGAAAATGAA
Found at i:2053749 original size:33 final size:32
Alignment explanation
Indices: 2053709--2053777 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
2053699 CTGTTACAAG
*
2053709 CAATGTATCGATACAATTCAT-CATGTATTGATA
1 CAATGTATCGATAC-ATT-ATACATGTATCGATA
*
2053742 CAATGTATCGCTACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATA-CATGTATCGATA
2053775 CAA
1 CAA
2053778 ACAGTGATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 27 0.84
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (32 bp):
CAATGTATCGATACATTATACATGTATCGATA
Found at i:2053762 original size:20 final size:20
Alignment explanation
Indices: 2053739--2053776 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2053729 TCATGTATTG
*
2053739 ATACAATGTATCGCTACATT
1 ATACAATGTATCGATACATT
*
2053759 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
2053777 AACAGTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:2053830 original size:20 final size:20
Alignment explanation
Indices: 2053805--2053894 Score: 139
Period size: 20 Copynumber: 4.5 Consensus size: 20
2053795 CTGCCAGTTT
2053805 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
2053825 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
*
2053845 TATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
*
2053865 CATGTATCGATATAA-TGAT-
1 CATGTATCGATACAATTG-TC
2053884 CATGTATCGAT
1 CATGTATCGAT
2053895 TTAATGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.20
20 53 0.80
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:2057271 original size:52 final size:52
Alignment explanation
Indices: 2057126--2057251 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
2057116 AATATGAAAT
2057126 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCAGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCAGGGCAAA
* *
2057178 TTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTA-GGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATC-AGGGCAAA
*
2057230 TTTGCCTACATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
2057252 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 68 0.99
53 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCAGGGCAAA
Found at i:2057278 original size:13 final size:13
Alignment explanation
Indices: 2057260--2057284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2057250 CAAAGATCAG
2057260 TGTATCGATACAA
1 TGTATCGATACAA
2057273 TGTATCGATACA
1 TGTATCGATACA
2057285 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2057363 original size:32 final size:33
Alignment explanation
Indices: 2057322--2057390 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
2057312 GGCAGTAGCT
2057322 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
* *
2057354 TACATTGTATCGATATAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
2057387 TACA
1 TACA
2057391 AATCGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:2058308 original size:54 final size:50
Alignment explanation
Indices: 2058226--2058606 Score: 251
Period size: 43 Copynumber: 7.9 Consensus size: 50
2058216 AATGTTAAAG
* *
2058226 AAGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTAAAAAC
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAAAC
* * * *
2058276 AATGACAAAGGCGCCAATTTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAG
1 AA-G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAAAC
* * *
2058330 AAGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACT------
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAAAC
* * * *
2058374 -TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAAAC
* * * * *
2058423 TA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT-TAAAG
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAAAC
* ** * ** ** *
2058471 AAGAA--TGCCAATGTATTGATTCAAGGCCAACGACATTTGGGTTTTAAAG
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA-TTGGACTAAAAAC
* * * * *
2058520 ATGAAGGTGCCAATATGCTAATTCAAGACCAGCGATATTAGACT------
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAAAC
* * * *
2058564 TA-AAGGTGCCAATGTGCTGATTTAAGGCCAGCGATATTGGACT
1 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
2058607 TAGAAGAAGA
Statistics
Matches: 268, Mismatches: 46, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
43 74 0.28
44 1 0.00
47 26 0.10
48 7 0.03
49 49 0.18
50 42 0.16
51 24 0.09
53 1 0.00
54 44 0.16
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (50 bp):
AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAAAC
Found at i:2058393 original size:43 final size:44
Alignment explanation
Indices: 2058283--2058612 Score: 259
Period size: 43 Copynumber: 7.1 Consensus size: 44
2058273 AACAATGACA
* * *
2058283 AAGGCGCCAATTTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT------AG
* *
2058333 AAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT-G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAG
* * *
2058376 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AG
*
2058422 ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AG
* * ** * * **
2058471 AAGAATGCCAATGTATTGATTCAAGGCCAACGACATTTGGGTTTTAAAGATG
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGATA-TT-GGACTT----A-G
* * *
2058523 AAGGTGCCAATATGCTAATTCAAGACCAGCGATATTAGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAG
* *
2058566 AAGGTGCCAATGTGCTGATTTAAGGCCAGCGATATTGGACTTAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAG
2058610 AAG
1 AAG
2058613 AAGATGCCAC
Statistics
Matches: 231, Mismatches: 36, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
43 78 0.34
44 3 0.01
45 1 0.00
46 4 0.02
47 24 0.10
48 2 0.01
49 51 0.22
50 39 0.17
51 25 0.11
52 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (44 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAG
Found at i:2058400 original size:21 final size:20
Alignment explanation
Indices: 2058333--2058400 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
2058323 TTAAAAGAAG
2058333 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
2058354 AAGGCTAGCTATATTG--GACTTG
1 AAGG-T-GCCA-ATTGCTGA-TTC
2058376 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
2058397 AAGG
1 AAGG
2058401 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:2058525 original size:147 final size:143
Alignment explanation
Indices: 2058219--2058621 Score: 396
Period size: 147 Copynumber: 2.8 Consensus size: 143
2058209 GCTTAGGAAT
* * *
2058219 GTTAAAGAAGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTAAAAACAATGACAA
1 GTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACT---TA-AA-GATAA
* * * *
2058284 AGGCGCCAATTTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGAAGAAGGTGCCAATATGCT
61 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGAAGAA--TGCCAATATACT
* * * *
2058349 GATTCAAGGCTAGCTATATTG
123 GATTCAAGGCCAACGACATTG
** * *
2058370 G----ACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
1 GTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTG
* * *
2058431 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAATGCCAATGTATTGATTCAAG
66 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAATGCCAATATACTGATTCAAG
2058496 GCCAACGACATTTGG
131 GCCAACGACA-TT-G
* * * *
2058511 GTTTTAAAGATGAAGGTGCCAATATGCTAATTCAAGACCAGCGATATTAGAC-T-----TAAAGG
1 G--TTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGG
* *
2058570 TGCCAATGTGCTGATTTAAGGCCAGCGATATTGGACTTAGAAGAAG-ATGCCA
64 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGAAGAATGCCA
2058622 CCAACTTGTG
Statistics
Matches: 214, Mismatches: 29, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
139 23 0.11
140 2 0.01
141 59 0.28
142 47 0.22
143 2 0.01
144 1 0.00
146 1 0.00
147 78 0.36
151 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (143 bp):
GTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTG
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAATGCCAATATACTGATTCAAG
GCCAACGACATTG
Found at i:2058544 original size:98 final size:97
Alignment explanation
Indices: 2058220--2058616 Score: 386
Period size: 92 Copynumber: 4.1 Consensus size: 97
2058210 CTTAGGAATG
* * * *
2058220 TTAAAGAAGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTAAAAACAATGACAAA
1 TTAAAGAAGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT-TAAAGAA-G---AA
* *
2058285 GGCGCCAATTTGCTGATTCAAGGCCAGCGACATT-GGACT
61 --TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGA-T
* * * * *
2058324 TAAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT---GAAG-GTGCCA
1 TTAAAGAAGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAAGAATGCCA
* *
2058385 ATGTGCTGATTCAAGGCCAGCTACATT-GGAC
66 ATGTGCTGATTCAAGGCCAGCGACATTGGGAT
* *
2058416 TTAAAGATA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAATGCC
1 TTAAAGA-AGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAAGAATGCC
** * *
2058480 AATGTATTGATTCAAGGCCAACGACATTTGGGTT
65 AATGTGCTGATTCAAGGCCAGCGACA-TTGGGAT
* * *
2058514 TTAAAGATGAAGGTGCCAATATGCTAATTCAAGACCAGCGATATTAGACTTAAAG--G--TGCCA
1 TTAAAGAAGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAAGAATGCCA
* * *
2058575 ATGTGCTGATTTAAGGCCAGCGATATT-GGAC
66 ATGTGCTGATTCAAGGCCAGCGACATTGGGAT
2058606 TTAGAAGAAGA
1 TTA-AAGAAGA
2058617 TGCCACCAAC
Statistics
Matches: 249, Mismatches: 35, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
92 52 0.21
93 41 0.16
94 25 0.10
95 4 0.02
96 27 0.11
97 2 0.01
98 51 0.20
99 1 0.00
100 2 0.01
104 44 0.18
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (97 bp):
TTAAAGAAGAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAAGAATGCCA
ATGTGCTGATTCAAGGCCAGCGACATTGGGAT
Found at i:2058658 original size:31 final size:31
Alignment explanation
Indices: 2058617--2058700 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 31
2058607 TAGAAGAAGA
2058617 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
2058649 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
2058676 TGCCACTGAC-T-TGTGGGCTTTTGAA
1 TGCCACCAACTTGTGTGGGCTTTTGAA
2058701 GAGATACCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 3 0.07
27 6 0.13
28 14 0.30
29 8 0.17
31 13 0.28
32 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:2058720 original size:29 final size:29
Alignment explanation
Indices: 2058676--2058996 Score: 446
Period size: 29 Copynumber: 11.0 Consensus size: 29
2058666 TTTTGAAGGT
* *
2058676 TGCCACTGACTTGTGGGCTTTTGAAGAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* * *
2058705 TACCATTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
2058735 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
2058764 TACCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
2058794 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
2058823 TACCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
2058853 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
2058882 TACCACTAACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
2058911 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
2058940 TACCATTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
2058969 TGCCACTAACTTGTGGG-TTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
2058997 AAAAATGTGC
Statistics
Matches: 257, Mismatches: 32, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
28 10 0.04
29 169 0.66
30 78 0.30
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:2058746 original size:59 final size:59
Alignment explanation
Indices: 2058671--2058996 Score: 550
Period size: 59 Copynumber: 5.6 Consensus size: 59
2058661 TGTGCTTTTG
* * *
2058671 AAGGTTGCCACTGACTTGTGGGCTTTTGAAGAGATACCATTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
*
2058730 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
2058789 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
*
2058848 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
* *
2058907 AA-GATGCCACTGACTTGTGGGCTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
* *
2058965 AA-GATGCCACTAACTTGTGGG-TTTTGAAAAGA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGA
2058997 AAAAATGTGC
Statistics
Matches: 257, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
57 11 0.04
58 73 0.28
59 173 0.67
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (59 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
Found at i:2058825 original size:118 final size:118
Alignment explanation
Indices: 2058630--2058996 Score: 564
Period size: 118 Copynumber: 3.2 Consensus size: 118
2058620 CACCAACTTG
* * ** * * * *
2058630 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG--AAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGG
*
2058693 CTTTTGAAGAGATACCATTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
66 CTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* * *
2058746 TGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGG
1 TGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGG
*
2058811 CTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
66 CTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
2058864 TGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGG
1 TGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGG
* *
2058928 CTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAAAA-GATGCCACTAACT
66 CTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
2058980 TGTGGG-TTTTGAAAAGA
1 TGTGGGCTTTTGAAAAGA
2058997 AAAAATGTGC
Statistics
Matches: 231, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
115 11 0.05
116 49 0.21
117 56 0.24
118 115 0.50
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (118 bp):
TGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGG
CTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
Found at i:2060525 original size:10 final size:10
Alignment explanation
Indices: 2060510--2060557 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
2060500 ACCCTTTTTG
2060510 TTGTTTGTTT
1 TTGTTTGTTT
*
2060520 TTGTTTTTTT
1 TTGTTTGTTT
*
2060530 TTGTTTTTTT
1 TTGTTTGTTT
2060540 TTGTTTTGTTT
1 TTG-TTTGTTT
2060551 TGTGTTT
1 T-TGTTT
2060558 TTTGGGAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 22 0.65
11 10 0.29
12 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (10 bp):
TTGTTTGTTT
Found at i:2060531 original size:5 final size:5
Alignment explanation
Indices: 2060513--2060553 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
2060503 CTTTTTGTTG
* *
2060513 TTTGTT TTTGT TTTTT TTTGT TTTTT TTTGT TTTGT TTTGT
1 TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT
2060554 GTTTTTTGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
TTTGT
Found at i:2060533 original size:20 final size:20
Alignment explanation
Indices: 2060504--2060553 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2060494 ATCCGGACCC
*
2060504 TTTTTGTTGTTTGTTTTTGT
1 TTTTTTTTGTTTGTTTTTGT
*
2060524 TTTTTTTTGTTTTTTTTTGT
1 TTTTTTTTGTTTGTTTTTGT
*
2060544 TTTGTTTTGT
1 TTTTTTTTGT
2060554 GTTTTTTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (20 bp):
TTTTTTTTGTTTGTTTTTGT
Found at i:2060558 original size:20 final size:20
Alignment explanation
Indices: 2060517--2060560 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2060507 TTGTTGTTTG
* *
2060517 TTTTTGTTTTTTTTTGTTTT
1 TTTTTGTTTTGTTTTGTGTT
2060537 TTTTTGTTTTGTTTTGTGTT
1 TTTTTGTTTTGTTTTGTGTT
2060557 TTTT
1 TTTT
2060561 GGGAGGATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (20 bp):
TTTTTGTTTTGTTTTGTGTT
Found at i:2067192 original size:20 final size:20
Alignment explanation
Indices: 2067140--2067221 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 20
2067130 AAAAAAAAAA
2067140 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
2067159 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
2067180 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
2067200 ATTCTACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
2067221 A
1 A
2067222 GGGTCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 34 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:2067201 original size:41 final size:40
Alignment explanation
Indices: 2067140--2067221 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
2067130 AAAAAAAAAA
* *
2067140 ATTCCAAATGTATCGATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCGATACA-TTCTACAAATGTATCGATAC
2067180 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
2067221 A
1 A
2067222 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:2067296 original size:13 final size:13
Alignment explanation
Indices: 2067278--2067302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2067268 ACATAAGTTT
2067278 TGTATCGATACAA
1 TGTATCGATACAA
2067291 TGTATCGATACA
1 TGTATCGATACA
2067303 TAATTAGCTA
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2067363 original size:13 final size:13
Alignment explanation
Indices: 2067345--2067370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2067335 CATTTTTCTA
2067345 TGTATCGATACAT
1 TGTATCGATACAT
2067358 TGTATCGATACAT
1 TGTATCGATACAT
2067371 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2067367 original size:33 final size:33
Alignment explanation
Indices: 2067325--2067391 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2067315 GCCAAGGAAA
***
2067325 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
*
2067358 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
2067391 T
1 T
2067392 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:2069924 original size:28 final size:27
Alignment explanation
Indices: 2069857--2069929 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2069847 CTTCACAATC
* *
2069857 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2069884 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2069912 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2069930 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2069974 original size:51 final size:51
Alignment explanation
Indices: 2069912--2070082 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2069902 TTATTTCTGA
* * *
2069912 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
2069963 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
2070016 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
2070068 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2070083 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:2070101 original size:28 final size:28
Alignment explanation
Indices: 2070065--2070146 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2070055 ATTTTTCACA
*
2070065 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
2070093 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
2070121 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
2070147 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:2078718 original size:52 final size:52
Alignment explanation
Indices: 2078573--2078698 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
2078563 AATATGAAAT
*
2078573 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
* * *
2078625 TTTTCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
*
2078677 TTTGCCTACATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
2078699 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAAA
Found at i:2078725 original size:13 final size:13
Alignment explanation
Indices: 2078707--2078731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2078697 CAAAGATCAG
2078707 TGTATCGATACAA
1 TGTATCGATACAA
2078720 TGTATCGATACA
1 TGTATCGATACA
2078732 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2078773 original size:86 final size:85
Alignment explanation
Indices: 2078634--2078817 Score: 223
Period size: 86 Copynumber: 2.2 Consensus size: 85
2078624 ATTTTCCTGT
* * *
2078634 ATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTACA-TGTATCGATAC
1 ATGTATCGATACATTTGATAATGTATCGATACATCTAGGCAAATTAGCCTACATTGTATCGATAC
2078698 AAAGA-TCAGTGTATCGATACA
66 AAA-ACTCA-TGTATCGATACA
* * *
2078719 ATGTATCGATACATTTGAGTAATGTATCGATACATTTTTTGGC-AA-TAGCTTACATTGTATCGA
1 ATGTATCGATACATTTGA-TAATGTATCGATACA--TCTAGGCAAATTAGCCTACATTGTATCGA
*
2078782 TACAAAACTTATGTATCGATACA
63 TACAAAACTCATGTATCGATACA
*
2078805 TTGTATCGATACA
1 ATGTATCGATACA
2078818 ACACTTTATG
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
85 17 0.20
86 46 0.53
87 18 0.21
88 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (85 bp):
ATGTATCGATACATTTGATAATGTATCGATACATCTAGGCAAATTAGCCTACATTGTATCGATAC
AAAACTCATGTATCGATACA
Found at i:2078810 original size:32 final size:33
Alignment explanation
Indices: 2078769--2078837 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
2078759 GGCAATAGCT
2078769 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
* *
2078801 TACATTGTATCGATACAACACTTTATGTATCGT
1 TACATTGTATCGATACAAAACTTTATGTATCGA
2078834 TACA
1 TACA
2078838 AATTGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:2078811 original size:13 final size:13
Alignment explanation
Indices: 2078793--2078817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2078783 ACAAAACTTA
2078793 TGTATCGATACAT
1 TGTATCGATACAT
2078806 TGTATCGATACA
1 TGTATCGATACA
2078818 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2087271 original size:33 final size:32
Alignment explanation
Indices: 2087231--2087299 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
2087221 CCGTTACAAG
2087231 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCGATAC-ATT-ATACATGTATCGATA
* *
2087264 CAATGTATTGATACATTATAACATGTATTGATA
1 CAATGTATCGATACATTAT-ACATGTATCGATA
2087297 CAA
1 CAA
2087300 ACAGTAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 27 0.84
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATTATACATGTATCGATA
Found at i:2087372 original size:19 final size:18
Alignment explanation
Indices: 2087327--2087384 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
2087317 ACTGCCAGTT
*
2087327 TCATGTATCGATACGATTG
1 TCATGTATCGATAC-AATG
2087346 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
2087365 ATCATGTATCGATATAATG
1 -TCATGTATCGATACAATG
2087384 T
1 T
2087385 ATCGATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.57
20 14 0.40
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:2087390 original size:32 final size:33
Alignment explanation
Indices: 2087349--2087411 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
2087339 ACGATTGTCC
* *
2087349 ATGTATCGATACAATG-ATCATGTATCGATATA
1 ATGTATCGATACAAAGCATAATGTATCGATATA
2087381 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
2087412 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATATA
Found at i:2088484 original size:20 final size:21
Alignment explanation
Indices: 2088459--2088514 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
2088449 AAAATTATAA
*
2088459 AAAATAAAATTAACC-ATAGT
1 AAAATAAAATTAACCAAAAGT
2088479 AAAATAATTAATTTAACCAAAAGT
1 AAAATAA--AA-TTAACCAAAAGT
2088503 AAAAT-AAATTAA
1 AAAATAAAATTAA
2088515 ATTAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 11 0.35
21 2 0.06
22 2 0.06
23 7 0.23
24 9 0.29
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAATAAAATTAACCAAAAGT
Found at i:2088555 original size:16 final size:17
Alignment explanation
Indices: 2088534--2088567 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2088524 ATTTTTTCTT
*
2088534 ATTTATTTAAA-ATTTA
1 ATTTATATAAATATTTA
2088550 ATTTATATAAATATTTA
1 ATTTATATAAATATTTA
2088567 A
1 A
2088568 ATAAGATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATATAAATATTTA
Found at i:2091797 original size:2 final size:2
Alignment explanation
Indices: 2091790--2091837 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
2091780 TGAATATGTA
* *
2091790 AT AT AT AT AT AT AT AT AA AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2091832 GT AT AT
1 AT AT AT
2091838 GTGTGTGCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2093614 original size:11 final size:11
Alignment explanation
Indices: 2093586--2093615 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2093576 TTTTTTTTTT
2093586 GGGGGGG-GGG
1 GGGGGGGAGGG
2093596 GGGGGGGAGGG
1 GGGGGGGAGGG
2093607 GGGGGGGAG
1 GGGGGGGAG
2093616 TGGAGTGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.07, C:0.00, G:0.93, T:0.00
Consensus pattern (11 bp):
GGGGGGGAGGG
Found at i:2094468 original size:22 final size:22
Alignment explanation
Indices: 2094422--2094466 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2094412 TATTAATAAT
2094422 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAATATTTATA
*
2094444 TATTTTTA-ATTAA-ATTTAAA
1 TATTTTTATATTAATATTTATA
2094464 TAT
1 TAT
2094467 ATAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATATTAATATTTATA
Found at i:2094474 original size:28 final size:26
Alignment explanation
Indices: 2094434--2094495 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
2094424 TTTTTATATT
* *
2094434 AATATTTATATATTTTTAATTAAATTTA
1 AATATATAAATATTTTTAATT-AA-TTA
*
2094462 AATATATAAATATTTTTTATTAATTA
1 AATATATAAATATTTTTAATTAATTA
2094488 AATA-ATAA
1 AATATATAA
2094496 TTTAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 7 0.23
27 2 0.06
28 18 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AATATATAAATATTTTTAATTAATTA
Found at i:2094488 original size:26 final size:26
Alignment explanation
Indices: 2094405--2094495 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
2094395 TTTAAATAAT
* *
2094405 ATTAAA-ATATTAATAATTATTT-TTA
1 ATTAAATATATAAAT-ATTTTTTATTA
* * *
2094430 TATT-AATATTTATATATTTTTAATTAA
1 -ATTAAATATATAAATATTTTTTATT-A
2094457 ATTTAAATATATAAATATTTTTTATTA
1 A-TTAAATATATAAATATTTTTTATTA
2094484 ATTAAATA-ATAA
1 ATTAAATATATAA
2094496 TTTAAATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
25 11 0.21
26 18 0.35
27 5 0.10
28 18 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTAAATATATAAATATTTTTTATTA
Found at i:2095170 original size:16 final size:17
Alignment explanation
Indices: 2095134--2095170 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2095124 TTATTATACA
2095134 TATTCATGAACTTTGAC
1 TATTCATGAACTTTGAC
*
2095151 TATTCATGAA-TTTGAG
1 TATTCATGAACTTTGAC
2095167 TATT
1 TATT
2095171 TATAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (17 bp):
TATTCATGAACTTTGAC
Found at i:2099743 original size:27 final size:25
Alignment explanation
Indices: 2099689--2099748 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
2099679 AATTTTTAAT
* *
2099689 TAAAATTTTTTAAAACTTCTACATA
1 TAAAATTTTTTAAAAATTCTACACA
2099714 TAAAATTTTTTCATAAAATT-TAACACA
1 TAAAATTTTTT-A-AAAATTCT-ACACA
2099741 TAAAATTT
1 TAAAATTT
2099749 AATTAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 11 0.37
26 2 0.07
27 17 0.57
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAAATTTTTTAAAAATTCTACACA
Found at i:2102155 original size:28 final size:28
Alignment explanation
Indices: 2102095--2102157 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
2102085 ATAAATGTCT
* * * *
2102095 AAAATTAAATTAAATATAATTACATTTC
1 AAAATTAAATTAAAAATAATTAAATATA
2102123 AAAATTAAATTAAAAATAA-TAAATATA
1 AAAATTAAATTAAAAATAATTAAATATA
2102150 ACAAATTA
1 A-AAATTA
2102158 TTAATTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAATTAAATTAAAAATAATTAAATATA
Found at i:2103532 original size:17 final size:17
Alignment explanation
Indices: 2103505--2103537 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2103495 TACAAATTAC
2103505 AATATTTATTTATTTTAA
1 AATATTTATTT-TTTTAA
2103523 AATA-TTATTTTTTTA
1 AATATTTATTTTTTTA
2103538 GTTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATATTTATTTTTTTAA
Found at i:2104462 original size:17 final size:18
Alignment explanation
Indices: 2104440--2104473 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2104430 TATTATTCTC
*
2104440 TTTTTTTATT-CAAAATA
1 TTTTTTAATTACAAAATA
2104457 TTTTTTAATTACAAAAT
1 TTTTTTAATTACAAAAT
2104474 TATCTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTAATTACAAAATA
Found at i:2104981 original size:24 final size:23
Alignment explanation
Indices: 2104939--2104987 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
2104929 ACACTGGATT
*
2104939 TTTAAATAAAAATGATTAATTAA
1 TTTAAATAAAAATGATTAATAAA
2104962 TTTAAATAAAAAT-ATTTTAATAAA
1 TTTAAATAAAAATGA--TTAATAAA
2104986 TT
1 TT
2104988 CATTTCAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 13 0.57
24 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTAAATAAAAATGATTAATAAA
Found at i:2105446 original size:7 final size:7
Alignment explanation
Indices: 2105434--2105466 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
2105424 TATATTATTT
2105434 AAAATTA
1 AAAATTA
2105441 AAAATTA
1 AAAATTA
2105448 AAAATTA
1 AAAATTA
2105455 AAAATTA
1 AAAATTA
2105462 AAAAT
1 AAAAT
2105467 AACTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:2106613 original size:12 final size:11
Alignment explanation
Indices: 2106593--2106634 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
2106583 TTGAAAAGCA
2106593 AAAAAATAAAT
1 AAAAAATAAAT
2106604 AAATAAATAAAT
1 AAA-AAATAAAT
*
2106616 AAAACATAAAT
1 AAAAAATAAAT
2106627 AGAAAAAT
1 A-AAAAAT
2106635 GAACAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:2106642 original size:23 final size:23
Alignment explanation
Indices: 2106593--2106643 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2106583 TTGAAAAGCA
*
2106593 AAAAAATAAATAAATAAATAAAT
1 AAAAAATAAATAAATAAATAAAC
* *
2106616 AAAACATAAATAGAA-AAATGAAC
1 AAAAAATAAATA-AATAAATAAAC
2106639 AAAAA
1 AAAAA
2106644 CAAAACTATC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAAAATAAATAAATAAATAAAC
Found at i:2108314 original size:2 final size:2
Alignment explanation
Indices: 2108307--2108349 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
2108297 TTTCTTTAGG
* * *
2108307 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2108349 A
1 A
2108350 AGAGTTGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2108324 original size:12 final size:12
Alignment explanation
Indices: 2108306--2108349 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
2108296 ATTTCTTTAG
2108306 GATATATATATA
1 GATATATATATA
*
2108318 TATATATATATA
1 GATATATATATA
*
2108330 GATATAGATATA
1 GATATATATATA
2108342 GATATATA
1 GATATATA
2108350 AGAGTTGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (12 bp):
GATATATATATA
Found at i:2110154 original size:21 final size:21
Alignment explanation
Indices: 2110129--2110183 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2110119 GATTAGTTAA
* *
2110129 AATAATGATGAGATTAAATATT
1 AATAATGATAAAATTAAA-ATT
*
2110151 -ATAATAATAAAATTAAAATT
1 AATAATGATAAAATTAAAATT
2110171 AATAATGA-AAAAT
1 AATAATGATAAAAT
2110184 ATGTTTGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAATGATAAAATTAAAATT
Found at i:2111287 original size:27 final size:25
Alignment explanation
Indices: 2111257--2111330 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 25
2111247 AAGTAAATAT
2111257 AATAAT-TAAAATATAATATAATATAAA
1 AATAATAT-AAATA-AAT-TAATATAAA
2111284 AATAATATAAATAAATTAATATATCAA
1 AATAATATAAATAAATTAATATA--AA
*
2111311 AATTTATATAAAATAAATTA
1 AA-TAATAT-AAATAAATTA
2111331 TTAATATGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 7 0.17
26 3 0.07
27 15 0.37
28 6 0.15
29 10 0.24
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAATATAAATAAATTAATATAAA
Found at i:2111288 original size:16 final size:17
Alignment explanation
Indices: 2111252--2111374 Score: 68
Period size: 16 Copynumber: 7.6 Consensus size: 17
2111242 ATATTAAGTA
2111252 AATATAATAATTAAAATAT
1 AATATAAT-A-TAAAATAT
2111271 AATATAATATAAAA-AT
1 AATATAATATAAAATAT
2111287 AATATAA-AT-AAAT-T
1 AATATAATATAAAATAT
*
2111301 AATAT-AT-CAAAAT-T
1 AATATAATATAAAATAT
* * *
2111315 TATATAAAATAAATTATT
1 AATATAATATAAAATA-T
* *
2111333 AATAT-GTA-AAAATTT
1 AATATAATATAAAATAT
* *
2111348 ATATAAAATATATAATAT
1 A-ATATAATATAAAATAT
2111366 AATA-AATAT
1 AATATAATAT
2111375 TATTACGATA
Statistics
Matches: 80, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
13 1 0.01
14 18 0.22
15 5 0.06
16 25 0.31
17 11 0.14
18 12 0.15
19 8 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (17 bp):
AATATAATATAAAATAT
Found at i:2111355 original size:11 final size:11
Alignment explanation
Indices: 2111263--2111361 Score: 53
Period size: 11 Copynumber: 9.0 Consensus size: 11
2111253 ATATAATAAT
2111263 TAAAATATA-A
1 TAAAATATATA
*
2111273 TATAATATA-A
1 TAAAATATATA
* *
2111283 AAATAATATAAA
1 TAA-AATATATA
*
2111295 TAAATTAATATA
1 TAAAAT-ATATA
*
2111307 TCAAAATTTATA
1 T-AAAATATATA
*
2111319 TAAAATAAAT-
1 TAAAATATATA
* *
2111329 TATTAATATGTA
1 TA-AAATATATA
*
2111341 -AAAATTTATA
1 TAAAATATATA
2111351 TAAAATATATA
1 TAAAATATATA
2111362 ATATAATAAA
Statistics
Matches: 65, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
10 18 0.28
11 30 0.46
12 13 0.20
13 4 0.06
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (11 bp):
TAAAATATATA
Found at i:2111366 original size:46 final size:47
Alignment explanation
Indices: 2111316--2111412 Score: 128
Period size: 48 Copynumber: 2.1 Consensus size: 47
2111306 ATCAAAATTT
*
2111316 ATATAA-AATAAATTATTA-ATATGTAAAAATTTATATAAAATAT-ATA
1 ATATAATAA-AAATTATTACATATGTAAAAATATATA-AAAATATCATA
*
2111362 ATATAATAAATATTATTACGATATGTAAAAATATATAAAAATATCATA
1 ATATAATAAAAATTATTAC-ATATGTAAAAATATATAAAAATATCATA
2111410 ATA
1 ATA
2111413 CAAGAACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
46 14 0.31
47 9 0.20
48 22 0.49
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (47 bp):
ATATAATAAAAATTATTACATATGTAAAAATATATAAAAATATCATA
Found at i:2111374 original size:14 final size:14
Alignment explanation
Indices: 2111222--2111374 Score: 57
Period size: 14 Copynumber: 10.4 Consensus size: 14
2111212 GTCAGCTTTT
* *
2111222 AATATGATATAATT
1 AATATAATATAATA
* *
2111236 CATATTATATTAAGTA
1 AATATAATA-TAA-TA
*
2111252 AATATAATA-ATTAA
1 AATATAATATAAT-A
2111266 AATATAATATAATATA
1 AATATAATAT-A-ATA
*
2111282 AAAATAATATAAATA
1 AATATAATAT-AATA
2111297 AAT-TAATAT-ATCAA
1 AATATAATATAAT--A
* *
2111311 AATTTATATAAAATA
1 AATATA-ATATAATA
2111326 AATTATTAATATGTAA-A
1 AA-TA-TAATA--TAATA
*
2111343 AAT-TTATATAA-A
1 AATATAATATAATA
2111355 ATATATAATATAATA
1 A-ATATAATATAATA
2111370 AATAT
1 AATAT
2111375 TATTACGATA
Statistics
Matches: 107, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
12 7 0.07
13 3 0.03
14 43 0.40
15 15 0.14
16 29 0.27
17 8 0.07
18 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (14 bp):
AATATAATATAATA
Found at i:2112976 original size:21 final size:20
Alignment explanation
Indices: 2112952--2112995 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2112942 ATATTTTATA
2112952 ATTAAATTTAAATAAAAATAT
1 ATTAAATTTAAATAAAAA-AT
* *
2112973 ATT-ATTTTAATTAAAAAAT
1 ATTAAATTTAAATAAAAAAT
2112992 ATTA
1 ATTA
2112996 TTGTTGAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.25
20 12 0.60
21 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAAATTTAAATAAAAAAT
Found at i:2112987 original size:20 final size:19
Alignment explanation
Indices: 2112958--2112997 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2112948 TATAATTAAA
2112958 TTTAAATAAAAATATATTAT
1 TTTAAATAAAAA-ATATTAT
*
2112978 TTTAATTAAAAAATATTAT
1 TTTAAATAAAAAATATTAT
2112997 T
1 T
2112998 GTTGAGCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTAAATAAAAAATATTAT
Found at i:2121760 original size:14 final size:14
Alignment explanation
Indices: 2121741--2121771 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2121731 ATAATGTATC
2121741 GATACATGAACAGT
1 GATACATGAACAGT
*
2121755 GATACATGAACTGT
1 GATACATGAACAGT
2121769 GAT
1 GAT
2121772 GAATAGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (14 bp):
GATACATGAACAGT
Found at i:2121900 original size:33 final size:32
Alignment explanation
Indices: 2121839--2121903 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2121829 ACAATTCATG
*
2121839 ATGTATCAATACCAAGAACATTTATCGATACA
1 ATGTATCAATACCAAGAACATGTATCGATACA
* * *
2121871 ATGTATCGATACTAAGCAATATGTATCGATACA
1 ATGTATCAATACCAAG-AACATGTATCGATACA
2121904 TCTACTTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (32 bp):
ATGTATCAATACCAAGAACATGTATCGATACA
Found at i:2124818 original size:13 final size:13
Alignment explanation
Indices: 2124800--2124824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2124790 CATCATGCTT
2124800 TGTATCGATACAA
1 TGTATCGATACAA
2124813 TGTATCGATACA
1 TGTATCGATACA
2124825 TGTTCATTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2124823 original size:33 final size:32
Alignment explanation
Indices: 2124779--2124843 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2124769 ACACACCCAG
* *
2124779 ATGTATTGATACATCATGCTTTGTATCGATACA
1 ATGTATCGATACAT-ATGCATTGTATCGATACA
* *
2124812 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATATGCATTGTATCGATACA
2124844 TGGACAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATATGCATTGTATCGATACA
Found at i:2124855 original size:20 final size:20
Alignment explanation
Indices: 2124809--2124861 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2124799 TTGTATCGAT
*
2124809 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
2124828 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
2124847 ACAATTGTATCGATA
1 ACAATTGTATCGATA
2124862 TATGAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 16 0.55
20 12 0.41
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2124919 original size:20 final size:20
Alignment explanation
Indices: 2124894--2124947 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2124884 TTATCACTAT
*
2124894 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
2124914 TTGTATCGATGCATGATGAA
1 TTGTATCGATACATGATGAA
2124934 TTGTATCGATACAT
1 TTGTATCGATACAT
2124948 TTCTTCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:2126834 original size:3 final size:3
Alignment explanation
Indices: 2126826--2126861 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2126816 TCAACCATCA
* *
2126826 ATG ATG ATG AAG ATG ATA ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
2126862 GTGACTCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Done.