Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 7 of 182
Found at i:2032982 original size:28 final size:28
Alignment explanation
Indices: 2032930--2033011 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
2032920 ACTTTGTGCT
2032930 ATTCTGGTGTGTTTTGGATGGATTATATG
1 ATTCTGGTGTGTTTTGGA-GGATTATATG
* *
2032959 ATTCTAGTGTGTTTGGGAGGATTATATG
1 ATTCTGGTGTGTTTTGGAGGATTATATG
*
2032987 ATACTGGTGTGTTTTGGAGGATTAT
1 ATTCTGGTGTGTTTTGGAGGATTAT
2033012 CTGGTGTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.67
29 16 0.33
ACGTcount: A:0.20, C:0.04, G:0.32, T:0.45
Consensus pattern (28 bp):
ATTCTGGTGTGTTTTGGAGGATTATATG
Found at i:2033265 original size:21 final size:21
Alignment explanation
Indices: 2033220--2033303 Score: 107
Period size: 21 Copynumber: 4.0 Consensus size: 21
2033210 GCTATACTGA
*
2033220 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCG--TT
*
2033243 TCAGGCACCTTGTGTGTCGTT
1 TCAGGCACCTTATGTGTCGTT
**
2033264 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTTATGTGTCGTT
2033285 TCAGGCA-CTTATGTGTCGT
1 TCAGGCACCTTATGTGTCGT
2033304 ATACTGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
20 10 0.18
21 29 0.52
23 17 0.30
ACGTcount: A:0.13, C:0.23, G:0.26, T:0.38
Consensus pattern (21 bp):
TCAGGCACCTTATGTGTCGTT
Found at i:2034545 original size:46 final size:48
Alignment explanation
Indices: 2034387--2034573 Score: 163
Period size: 46 Copynumber: 3.9 Consensus size: 48
2034377 TGGTTGGACC
2034387 ATGGCATCA-A-TGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
2034433 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
2034486 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
2034532 ATGGC-TACGGTGTGTGATATGTGACTAT-GTGCAAGACCATAG
1 ATGGCAT-CAGAGTGTGATATGTGA-T-TCGTGTAAGACCATAG
2034574 TTTTACTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 23
0.75 0.09 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 8 0.07
48 18 0.16
49 13 0.11
50 1 0.01
51 7 0.06
52 5 0.04
53 27 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:2037244 original size:789 final size:789
Alignment explanation
Indices: 2035725--2037303 Score: 3149
Period size: 789 Copynumber: 2.0 Consensus size: 789
2035715 TGTTGGATAG
2035725 CGAAATAGGGGAAACTTAAATGAATAAAATATACTAATTGGATAAACCAAAAATTCTTAAAATTT
1 CGAAATAGGGGAAACTTAAATGAATAAAATATACTAATTGGATAAACCAAAAATTCTTAAAATTT
2035790 TATAGTGGAATTATATGTGAGTCTAGTTTTATGGAAAATTTACGGACCTTAATTTTGAGCTCTGT
66 TATAGTGGAATTATATGTGAGTCTAGTTTTATGGAAAATTTACGGACCTTAATTTTGAGCTCTGT
2035855 AGCTCGAATTATAAATAATTGAGTGACTATGACTCGTGTGAACAGATTGATGTAAGCATTAATAA
131 AGCTCGAATTATAAATAATTGAGTGACTATGACTCGTGTGAACAGATTGATGTAAGCATTAATAA
2035920 GTAAATTGTGAAATCGTACTTACAAGAATGTTATATACATTAAGGATGTGGAATGGAGAGGAGGA
196 GTAAATTGTGAAATCGTACTTACAAGAATGTTATATACATTAAGGATGTGGAATGGAGAGGAGGA
2035985 GGAGGAAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAAGCTCATAGACT
261 GGAGGAAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAAGCTCATAGACT
2036050 AAATTGAATAAAAGTAAAACTTTAGGGGGCAATTTTGTAAAAATGTCAAAAATTACTAAATTGAT
326 AAATTGAATAAAAGTAAAACTTTAGGGGGCAATTTTGTAAAAATGTCAAAAATTACTAAATTGAT
2036115 GGAAATAAATTGTTTTATTATCTAAATTAATAAATTGAATGAAATTATCAATTTAAGATTGGGTG
391 GGAAATAAATTGTTTTATTATCTAAATTAATAAATTGAATGAAATTATCAATTTAAGATTGGGTG
*
2036180 AAATTTGGGAAAATGGTAAATTACCAATATGCCCCTAAATCTTGGTATTTCTGCAATTTATTCAG
456 AAATTTGGGAAAATGGTAAATTACCAATATGCCCCTAAATCTTGGTATTTCTGCAATTTAGTCAG
2036245 GTAGGTTCGGATACCCTGAATGAGCATGTAAATATGAAAATTTAAGTATTGTATCGTATTTTATA
521 GTAGGTTCGGATACCCTGAATGAGCATGTAAATATGAAAATTTAAGTATTGTATCGTATTTTATA
2036310 TGATATTTTGAATTGAATATATGAAAAGGATGTTACATGAAACATGAAAATGAATACCAAATAAT
586 TGATATTTTGAATTGAATATATGAAAAGGATGTTACATGAAACATGAAAATGAATACCAAATAAT
2036375 ATAAATTAATTGAAATTATTCTGAAAAGTTCGGTAATGCCTCGTATCCTATTCCGGATCTCAGGT
651 ATAAATTAATTGAAATTATTCTGAAAAGTTCGGTAATGCCTCGTATCCTATTCCGGATCTCAGGT
2036440 ACAGGTATGGGGTATTACACAATTTTCATACTTTTTCAATATTTACAATTTAATAATGAACATAT
716 ACAGGTATGGGGTATTACACAATTTTCATACTTTTTCAATATTTACAATTTAATAATGAACATAT
2036505 GAAATAAAA
781 GAAATAAAA
2036514 CGAAATAGGGGAAACTTAAATGAATAAAATATACTAATTGGATAAACCAAAAATTCTTAAAATTT
1 CGAAATAGGGGAAACTTAAATGAATAAAATATACTAATTGGATAAACCAAAAATTCTTAAAATTT
2036579 TATAGTGGAATTATATGTGAGTCTAGTTTTATGGAAAATTTACGGACCTTAATTTTGAGCTCTGT
66 TATAGTGGAATTATATGTGAGTCTAGTTTTATGGAAAATTTACGGACCTTAATTTTGAGCTCTGT
2036644 AGCTCGAATTATAAATAATTGAGTGACTATGACTCGTGTGAACAGATTGATGTAAGCATTAATAA
131 AGCTCGAATTATAAATAATTGAGTGACTATGACTCGTGTGAACAGATTGATGTAAGCATTAATAA
2036709 GTAAATTGTGAAATCGTACTTACAAGAATGTTATATACATTAAGGATGTGGAATGGAGAGGAGGA
196 GTAAATTGTGAAATCGTACTTACAAGAATGTTATATACATTAAGGATGTGGAATGGAGAGGAGGA
2036774 GGAGGAAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAAGCTCATAGACT
261 GGAGGAAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAAGCTCATAGACT
2036839 AAATTGAATAAAAGTAAAACTTTAGGGGGCAATTTTGTAAAAATGTCAAAAATTACTAAATTGAT
326 AAATTGAATAAAAGTAAAACTTTAGGGGGCAATTTTGTAAAAATGTCAAAAATTACTAAATTGAT
2036904 GGAAATAAATTGTTTTATTATCTAAATTAATAAATTGAATGAAATTATCAATTTAAGATTGGGTG
391 GGAAATAAATTGTTTTATTATCTAAATTAATAAATTGAATGAAATTATCAATTTAAGATTGGGTG
2036969 AAATTTGGGAAAATGGTAAATTACCAATATGCCCCTAAATCTTGGTATTTCTGCAATTTAGTCAG
456 AAATTTGGGAAAATGGTAAATTACCAATATGCCCCTAAATCTTGGTATTTCTGCAATTTAGTCAG
2037034 GTAGGTTCGGATACCCTGAATGAGCATGTAAATATGAAAATTTAAGTATTGTATCGTATTTTATA
521 GTAGGTTCGGATACCCTGAATGAGCATGTAAATATGAAAATTTAAGTATTGTATCGTATTTTATA
2037099 TGATATTTTGAATTGAATATATGAAAAGGATGTTACATGAAACATGAAAATGAATACCAAATAAT
586 TGATATTTTGAATTGAATATATGAAAAGGATGTTACATGAAACATGAAAATGAATACCAAATAAT
2037164 ATAAATTAATTGAAATTATTCTGAAAAGTTCGGTAATGCCTCGTATCCTATTCCGGATCTCAGGT
651 ATAAATTAATTGAAATTATTCTGAAAAGTTCGGTAATGCCTCGTATCCTATTCCGGATCTCAGGT
2037229 ACAGGTATGGGGTATTACACAATTTTCATACTTTTTCAATATTTACAATTTAATAATGAACATAT
716 ACAGGTATGGGGTATTACACAATTTTCATACTTTTTCAATATTTACAATTTAATAATGAACATAT
2037294 GAAATAAAA
781 GAAATAAAA
2037303 C
1 C
2037304 ATTATATCAT
Statistics
Matches: 789, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
789 789 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.34
Consensus pattern (789 bp):
CGAAATAGGGGAAACTTAAATGAATAAAATATACTAATTGGATAAACCAAAAATTCTTAAAATTT
TATAGTGGAATTATATGTGAGTCTAGTTTTATGGAAAATTTACGGACCTTAATTTTGAGCTCTGT
AGCTCGAATTATAAATAATTGAGTGACTATGACTCGTGTGAACAGATTGATGTAAGCATTAATAA
GTAAATTGTGAAATCGTACTTACAAGAATGTTATATACATTAAGGATGTGGAATGGAGAGGAGGA
GGAGGAAAAATATATATGAATATTCAGTTAGCATGGCTAATTTGCATGTTTTAAGCTCATAGACT
AAATTGAATAAAAGTAAAACTTTAGGGGGCAATTTTGTAAAAATGTCAAAAATTACTAAATTGAT
GGAAATAAATTGTTTTATTATCTAAATTAATAAATTGAATGAAATTATCAATTTAAGATTGGGTG
AAATTTGGGAAAATGGTAAATTACCAATATGCCCCTAAATCTTGGTATTTCTGCAATTTAGTCAG
GTAGGTTCGGATACCCTGAATGAGCATGTAAATATGAAAATTTAAGTATTGTATCGTATTTTATA
TGATATTTTGAATTGAATATATGAAAAGGATGTTACATGAAACATGAAAATGAATACCAAATAAT
ATAAATTAATTGAAATTATTCTGAAAAGTTCGGTAATGCCTCGTATCCTATTCCGGATCTCAGGT
ACAGGTATGGGGTATTACACAATTTTCATACTTTTTCAATATTTACAATTTAATAATGAACATAT
GAAATAAAA
Found at i:2039165 original size:24 final size:24
Alignment explanation
Indices: 2039137--2039184 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2039127 TCCAGGTTGT
*
2039137 ATAACGAGAAGCTCATAAGAGCCA
1 ATAACGAGAAGCTCAGAAGAGCCA
* * *
2039161 ATAACGGGTAGCTCCGAAGAGCCA
1 ATAACGAGAAGCTCAGAAGAGCCA
2039185 TTAATTGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (24 bp):
ATAACGAGAAGCTCAGAAGAGCCA
Found at i:2039822 original size:5 final size:5
Alignment explanation
Indices: 2039793--2039831 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
2039783 TAAATTTAGC
* *
2039793 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
2039832 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:2045197 original size:17 final size:16
Alignment explanation
Indices: 2045169--2045206 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
2045159 ATAAATTGTT
2045169 AAAAATTAT-AAAATA
1 AAAAATTATAAAAATA
2045184 AAAAATATATTAAAAATA
1 AAAAAT-TA-TAAAAATA
2045202 AAAAA
1 AAAAA
2045207 ATCGATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 2 0.10
17 1 0.05
18 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTATAAAAATA
Found at i:2046133 original size:18 final size:18
Alignment explanation
Indices: 2046098--2046136 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2046088 TAATTATTTG
*
2046098 AATTCAAATTTCAAAATA
1 AATTCAAATTCCAAAATA
2046116 AATT-AAATTCCAATAATA
1 AATTCAAATTCCAA-AATA
2046134 AAT
1 AAT
2046137 ATTTGAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTCAAATTCCAAAATA
Found at i:2055611 original size:52 final size:48
Alignment explanation
Indices: 2055509--2055633 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 48
2055499 AGAGTTTGAG
* * * *
2055509 AAGAGAACGAGAAGGTAAAAAAGAAAGAAAAAGAGACTAGTAGAATAGAA
1 AAGAGAAGGAGAAGGGAAAAAA-AAAGAAAAAGAGACAAGTAGAAGAG-A
* *
2055559 AAGAGAAGGAGAAGGGAAAAAAAAAGAGAATAGTAGAGAAGATAGAAGAGA
1 AAGAGAAGGAGAAGGGAAAAAAAAAGA-AAAAG-AGACAAG-TAGAAGAGA
*
2055610 AAG-GAAGGAGAAAAGGAAAAAAAA
1 AAGAGAAGGAG-AAGGGAAAAAAAA
2055634 TTTTGGGGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
49 5 0.08
50 31 0.48
51 21 0.33
52 7 0.11
ACGTcount: A:0.63, C:0.02, G:0.30, T:0.06
Consensus pattern (48 bp):
AAGAGAAGGAGAAGGGAAAAAAAAAGAAAAAGAGACAAGTAGAAGAGA
Found at i:2055623 original size:45 final size:44
Alignment explanation
Indices: 2055530--2055623 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 44
2055520 AAGGTAAAAA
* * *
2055530 AGAAAGAAAAAGAGACTAGTAGAATAGAAAAGAGAAGGAGAAGG
1 AGAAAAAAAAAGAGAATAGTAGAATAGAAAAGAGAAAGAGAAGG
2055574 -GAAAAAAAAAGAGAATAGTAGAGA-AGATAGAAGAGAAAG-GAAGG
1 AGAAAAAAAAAGAGAATAGTAGA-ATAGA-A-AAGAGAAAGAGAAGG
2055618 AGAAAA
1 AGAAAA
2055624 GGAAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 23 0.53
44 7 0.16
45 13 0.30
ACGTcount: A:0.62, C:0.01, G:0.31, T:0.06
Consensus pattern (44 bp):
AGAAAAAAAAAGAGAATAGTAGAATAGAAAAGAGAAAGAGAAGG
Found at i:2058237 original size:24 final size:22
Alignment explanation
Indices: 2058194--2058246 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
2058184 GATGTTGGTG
*
2058194 ATATTTT-ATAGTTATTTATTTA
1 ATATTTTAATAGATATTTA-TTA
2058216 ATATTTTAATAAGATATTTATTA
1 ATATTTTAAT-AGATATTTATTA
*
2058239 TTATTTTA
1 ATATTTTA
2058247 TTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
ATATTTTAATAGATATTTATTA
Found at i:2059444 original size:29 final size:29
Alignment explanation
Indices: 2059402--2059460 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2059392 GGGAAATATG
2059402 TATGAATATTCAGCTAGCATAGCTAATTT
1 TATGAATATTCAGCTAGCATAGCTAATTT
*
2059431 TATGAATATTCAGCTAGTATAGCTAATTT
1 TATGAATATTCAGCTAGCATAGCTAATTT
2059460 T
1 T
2059461 CATGTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (29 bp):
TATGAATATTCAGCTAGCATAGCTAATTT
Found at i:2074789 original size:30 final size:30
Alignment explanation
Indices: 2074753--2074809 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
2074743 CCCAACCTTT
*
2074753 TTATTTTTCCCTCAAAACTTTTACTCCTCC
1 TTATTTTTCCCCCAAAACTTTTACTCCTCC
2074783 TTATTTTTCCCCCAAAACTTTTACTCC
1 TTATTTTTCCCCCAAAACTTTTACTCC
2074810 CCTCTTATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.46
Consensus pattern (30 bp):
TTATTTTTCCCCCAAAACTTTTACTCCTCC
Found at i:2092312 original size:18 final size:18
Alignment explanation
Indices: 2092289--2092325 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2092279 AATTTATTTA
2092289 ATTGGATTGAACATATTG
1 ATTGGATTGAACATATTG
*
2092307 ATTGGATTGATCATATTG
1 ATTGGATTGAACATATTG
2092325 A
1 A
2092326 AAATTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (18 bp):
ATTGGATTGAACATATTG
Found at i:2095449 original size:27 final size:27
Alignment explanation
Indices: 2095414--2095479 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
2095404 ATAGCTAAGC
*
2095414 TATGGCAAAGTGATAAAGTGTGCCAAA
1 TATGACAAAGTGATAAAGTGTGCCAAA
2095441 TATGACAAAGTGATAAAGTGTGCCAAA
1 TATGACAAAGTGATAAAGTGTGCCAAA
*
2095468 CATGACAAAGTG
1 TATGACAAAGTG
2095480 TTCAGTGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (27 bp):
TATGACAAAGTGATAAAGTGTGCCAAA
Found at i:2095625 original size:68 final size:68
Alignment explanation
Indices: 2095536--2095793 Score: 288
Period size: 69 Copynumber: 3.8 Consensus size: 68
2095526 AGACAAAGTG
* *
2095536 TGAAACGTAGGTATGGAATTTCCATACCGAGCTGTGAAACGTAGGTATGGTAATTCCATACCGAG
1 TGAAACGTAGGTATGGTATTTCCATACCGAGCTGTGAAACGTAGGTATGGTAATTCCATACTGAG
*
2095601 CTG
66 CTA
**
2095604 TGAAACGTAGGTATGGTATTTCCATACCGAGCTGTGAAACGTAGGTATGACGT-CGTCCATACTG
1 TGAAACGTAGGTATGGTATTTCCATACCGAGCTGTGAAACGTAGGTATG--GTAATTCCATACTG
2095668 AGCTA
64 AGCTA
* * * ** * * ** *
2095673 TGATACGTAGGTATGGCATTGCCTATATTGAGTTATGAAATATAGGTATGGTATTTTCCATACTG
1 TGAAACGTAGGTATGGTATTTCC-ATACCGAGCTGTGAAACGTAGGTATGGTA-ATTCCATACTG
2095738 AGC-A
64 AGCTA
* * *
2095742 TGAAACGTAGGTATGGTGTTTTCCATACCGAGTTGTGAAATGTA-GTATGGTA
1 TGAAACGTAGGTATGGT-ATTTCCATACCGAGCTGTGAAACGTAGGTATGGTA
2095794 TTTCAATGAG
Statistics
Matches: 160, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
68 58 0.36
69 64 0.40
70 38 0.24
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (68 bp):
TGAAACGTAGGTATGGTATTTCCATACCGAGCTGTGAAACGTAGGTATGGTAATTCCATACTGAG
CTA
Found at i:2095671 original size:35 final size:33
Alignment explanation
Indices: 2095534--2095795 Score: 249
Period size: 34 Copynumber: 7.7 Consensus size: 33
2095524 CAAGACAAAG
*
2095534 TGTGAAACGTAGGTATGGAATTTCCATACCGAGC
1 TGTGAAACGTAGGTATGGTA-TTCCATACCGAGC
2095568 TGTGAAACGTAGGTATGGTAATTCCATACCGAGC
1 TGTGAAACGTAGGTATGGT-ATTCCATACCGAGC
2095602 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
1 TGTGAAACGTAGGTATGGTA-TTCCATACCGAGC
** *
2095636 TGTGAAACGTAGGTATGACGTCGTCCATACTGAGC
1 TGTGAAACGTAGGTATG--GTATTCCATACCGAGC
* * * ** *
2095671 TATGATACGTAGGTATGGCATTGCCTATATTGAGT
1 TGTGAAACGTAGGTATGGTATT-CC-ATACCGAGC
* ** *
2095706 TATGAAATATAGGTATGGTATTTTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTA--TTCCATACCGAGC
* * *
2095741 -ATGAAACGTAGGTATGGTGTTTTCCATACCGAGT
1 TGTGAAACGTAGGTAT-G-GTATTCCATACCGAGC
*
2095775 TGTGAAATGTA-GTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
2095796 TCAATGAGGA
Statistics
Matches: 192, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
32 4 0.02
33 4 0.02
34 110 0.57
35 66 0.34
36 6 0.03
37 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (33 bp):
TGTGAAACGTAGGTATGGTATTCCATACCGAGC
Found at i:2107144 original size:96 final size:97
Alignment explanation
Indices: 2106979--2107165 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 97
2106969 ATTTTATTTA
* * ** * *
2106979 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAAAGATGACAGCCAAGCACCCTA
*
2107044 CCCCGGTTACTTAGC-CTAACACATTCCTAATT
66 CCCCGGTTACTCAGCAC-AACACATTCCTAATT
*
2107076 TTTATTTTT-CTTAAGAACATATCAAACCTTTTTACGCAAAGAAAGATGACAGCCAAGCA-CCTC
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAAAGATGACAGCCAAGCACCCT-
2107139 ACCCCGGTTACTCAGCACAACACATTC
65 ACCCCGGTTACTCAGCACAACACATTC
2107166 TTAAAAATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
95 3 0.04
96 67 0.84
97 10 0.12
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAAAGATGACAGCCAAGCACCCTA
CCCCGGTTACTCAGCACAACACATTCCTAATT
Found at i:2107910 original size:5 final size:5
Alignment explanation
Indices: 2107900--2107964 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
2107890 AATTTTTATT
* *
2107900 AATAA AAT-A AATAA AATAA TA-AA AATAA AA-AA TA-AA AATAAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AAT-AA
2107948 AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AA
2107965 CAATAAAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 13 0.25
5 28 0.54
6 11 0.21
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:2107922 original size:12 final size:12
Alignment explanation
Indices: 2107905--2107971 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 12
2107895 TTATTAATAA
2107905 AATAAATAAAAT
1 AATAAATAAAAT
2107917 AATAAAAATAAAA-
1 AAT--AAATAAAAT
2107930 AATAAAAATAAAAAT
1 AAT--AAAT-AAAAT
2107945 AA-AAATAAAAT
1 AATAAATAAAAT
*
2107956 -A-AAATAAAAC
1 AATAAATAAAAT
2107966 AATAAA
1 AATAAA
2107972 AACTGGGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
10 9 0.19
11 6 0.12
12 10 0.21
13 9 0.19
14 12 0.25
15 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:2107928 original size:6 final size:6
Alignment explanation
Indices: 2107903--2107964 Score: 76
Period size: 6 Copynumber: 10.5 Consensus size: 6
2107893 TTTTATTAAT
*
2107903 AAAATA AATAA-A ATAATA AAAATAA AAAATA AAAATA AAAATA AAAAT-
1 AAAATA AA-AATA AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA
2107951 AAAAT- AAAATA AAA
1 AAAATA AAAATA AAA
2107965 CAATAAAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
5 12 0.24
6 30 0.60
7 8 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:2107935 original size:13 final size:13
Alignment explanation
Indices: 2107908--2107973 Score: 86
Period size: 12 Copynumber: 5.2 Consensus size: 13
2107898 TTAATAAAAT
2107908 AAATAAAATAATAA
1 AAATAAAA-AATAA
2107922 AAATAAAAAATAA
1 AAATAAAAAATAA
2107935 AAAT-AAAAATAA
1 AAATAAAAAATAA
2107947 AAAT--AAAAT-A
1 AAATAAAAAATAA
2107957 AAATAAAACAATAA
1 AAATAAAA-AATAA
2107971 AAA
1 AAA
2107974 CTGGGTTGCC
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.10
11 5 0.10
12 14 0.29
13 12 0.25
14 12 0.25
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:2107940 original size:36 final size:36
Alignment explanation
Indices: 2107903--2107973 Score: 74
Period size: 39 Copynumber: 1.9 Consensus size: 36
2107893 TTTTATTAAT
*
2107903 AAAAT-AAATAAAATAATAAAAATAAAAAATAAAAATA
1 AAAATAAAATAAAATAA-AACAAT-AAAAATAAAAATA
* *
2107940 AAAATAAAAATAAAATAAAATAA-AACAATAAAAA
1 AAAAT-AAAATAAAATAAAACAATAAAAATAAAAA
2107974 CTGGGTTGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
36 10 0.33
37 5 0.17
38 4 0.13
39 11 0.37
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (36 bp):
AAAATAAAATAAAATAAAACAATAAAAATAAAAATA
Found at i:2110170 original size:21 final size:21
Alignment explanation
Indices: 2110144--2110192 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
2110134 TTCTGTATGC
*
2110144 AAAAGTGCCAAATGGGAACGT
1 AAAAGTGCCAAATAGGAACGT
*
2110165 AAAAGTGCCAAATAGGCACGT
1 AAAAGTGCCAAATAGGAACGT
2110186 AAAAGTG
1 AAAAGTG
2110193 GTCTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.27, T:0.14
Consensus pattern (21 bp):
AAAAGTGCCAAATAGGAACGT
Found at i:2113530 original size:17 final size:18
Alignment explanation
Indices: 2113508--2113541 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2113498 GTTGAATTAA
2113508 AAATTAC-AAAATTAAAT
1 AAATTACGAAAATTAAAT
2113525 AAATTACGAAAATTAAA
1 AAATTACGAAAATTAAA
2113542 ATGAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATTACGAAAATTAAAT
Found at i:2114293 original size:10 final size:10
Alignment explanation
Indices: 2114266--2114315 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
2114256 TTAAATTCTA
*
2114266 AAAGATAATT
1 AAAGATAAAT
2114276 ACAA-ATAAAT
1 A-AAGATAAAT
*
2114286 AAAGATAATT
1 AAAGATAAAT
2114296 AAAGATAAAT
1 AAAGATAAAT
2114306 GAAA-ATAAAT
1 -AAAGATAAAT
2114316 CCTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:2114313 original size:20 final size:20
Alignment explanation
Indices: 2114266--2114305 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2114256 TTAAATTCTA
2114266 AAAGATAATTACAAATAAAT
1 AAAGATAATTACAAATAAAT
2114286 AAAGATAATTA-AAGATAAAT
1 AAAGATAATTACAA-ATAAAT
2114306 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAGATAATTACAAATAAAT
Found at i:2115407 original size:24 final size:24
Alignment explanation
Indices: 2115379--2115431 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
2115369 CAAGAATATA
2115379 TTATATCTTCAAATGAATAAATGT
1 TTATATCTTCAAATGAATAAATGT
2115403 TTATATCTTCAAATGAATAAATGT
1 TTATATCTTCAAATGAATAAATGT
*
2115427 ATATA
1 TTATA
2115432 CATAAGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
TTATATCTTCAAATGAATAAATGT
Found at i:2115752 original size:75 final size:75
Alignment explanation
Indices: 2115659--2115945 Score: 448
Period size: 75 Copynumber: 3.8 Consensus size: 75
2115649 AAACCGACAA
* * * *
2115659 ATATAAATAGTGAGCCCAACTATAATTGGATAAACCAACGATATTTGCACCTAGTGTTAGTCGGA
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGA
*
2115724 TAAACCGATG
66 TAAACAGATG
*
2115734 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTTGGA
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGA
* *
2115799 TAAACTGACG
66 TAAACAGATG
* * * *
2115809 ATATAAATAGTGAGCTCAGCTCTAGTTAGATAAACCAACAATATTTGCACCCAGTGCTAGTCGGA
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGA
2115874 TAAACAGATG
66 TAAACAGATG
* *
2115884 ATATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGTTAGTC
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTC
2115946 CATTACTCAT
Statistics
Matches: 194, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 194 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (75 bp):
ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGA
TAAACAGATG
Found at i:2115777 original size:40 final size:40
Alignment explanation
Indices: 2115659--2115927 Score: 150
Period size: 40 Copynumber: 7.1 Consensus size: 40
2115649 AAACCGACAA
* *
2115659 ATATAAATAGTGAGCCCAACTATAATTGGATAAACCAACG
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACG
* * * * * *
2115699 ATAT---T--T--GCACCTAGTGTTAGTCGGATAAACCGATG
1 ATATAAATAGTGAGC-CCAACT-CTAGTTGGATAAACCAACG
2115734 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACG
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACG
* **
2115774 ATAT---T--TGCA-CCC-AGTGCTAGTTGGATAAACTGACG
1 ATATAAATAGTG-AGCCCAACT-CTAGTTGGATAAACCAACG
* * *
2115809 ATATAAATAGTGAGCTCAGCTCTAGTTAGATAAACCAAC-
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACG
* * * *
2115848 A-AT--AT-TTGCA-CCC-AGTGCTAGTCGGATAAA-CAGATG
1 ATATAAATAGTG-AGCCCAACT-CTAGTTGGATAAACCA-ACG
*
2115884 ATATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAACG
1 ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACG
2115924 ATAT
1 ATAT
2115928 TTGCACCCAG
Statistics
Matches: 166, Mismatches: 34, Indels: 58
0.64 0.13 0.22
Matches are distributed among these distances:
33 2 0.01
34 9 0.05
35 61 0.37
36 5 0.03
37 4 0.02
38 4 0.02
39 5 0.03
40 66 0.40
41 8 0.05
42 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (40 bp):
ATATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACG
Found at i:2115801 original size:35 final size:35
Alignment explanation
Indices: 2115684--2115944 Score: 149
Period size: 35 Copynumber: 7.0 Consensus size: 35
2115674 CCAACTATAA
* *
2115684 TTGGATAAACCAACGATATTTGCACCTAGTGTTAG
1 TTGGATAAACCAACGATATTTGCACCCAGTGCTAG
* * * *
2115719 TCGGATAAACCGATGATATAAATAGTG-AGCCCAACT-CTAG
1 TTGGATAAACCAACGATAT---T--TGCA-CCC-AGTGCTAG
2115759 TTGGATAAACCAACGATATTTGCACCCAGTGCTAG
1 TTGGATAAACCAACGATATTTGCACCCAGTGCTAG
** *
2115794 TTGGATAAACTGACGATATAAATAGTG-AGCTCAGCT-CTAG
1 TTGGATAAACCAACGATAT---T--TGCA-CCCAG-TGCTAG
* *
2115834 TTAGATAAACCAACAATATTTGCACCCAGTGCTAG
1 TTGGATAAACCAACGATATTTGCACCCAGTGCTAG
* *
2115869 TCGGATAAA-CAGATGATATAAATAGTG-AGCCCAGCT-CTAG
1 TTGGATAAACCA-ACGATAT---T--TGCA-CCCAG-TGCTAG
*
2115909 TTGGATAAACCAACGATATTTGCACCCAGTGTTAG
1 TTGGATAAACCAACGATATTTGCACCCAGTGCTAG
2115944 T
1 T
2115945 CCATTACTCA
Statistics
Matches: 172, Mismatches: 25, Indels: 58
0.67 0.10 0.23
Matches are distributed among these distances:
34 6 0.03
35 75 0.44
36 3 0.02
37 3 0.02
38 3 0.02
39 3 0.02
40 73 0.42
41 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGGATAAACCAACGATATTTGCACCCAGTGCTAG
Found at i:2116011 original size:20 final size:21
Alignment explanation
Indices: 2115971--2116019 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
2115961 AGTCCATAAG
2115971 ATCACATTTCATAATCTCAAT
1 ATCACATTTCATAATCTCAAT
*
2115992 ATCGCATTTCATAA-CTCAAT
1 ATCACATTTCATAATCTCAAT
2116012 ATCACATT
1 ATCACATT
2116020 CACTTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (21 bp):
ATCACATTTCATAATCTCAAT
Found at i:2116028 original size:37 final size:36
Alignment explanation
Indices: 2115987--2116078 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
2115977 TTTCATAATC
* *
2115987 TCAATATCGCATTTCAT-AACTCAATATCACATTCACT
1 TCAATATC-CA-TTAATCAACTCAATATCACATACACT
* *
2116024 TCAATTATCTATTAATCAACTCAATATCATATACACT
1 TCAA-TATCCATTAATCAACTCAATATCACATACACT
*
2116061 TCAATTATCTATTAATCA
1 TCAA-TATCCATTAATCA
2116079 TTCATTAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
36 4 0.08
37 41 0.84
38 4 0.08
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (36 bp):
TCAATATCCATTAATCAACTCAATATCACATACACT
Found at i:2120416 original size:32 final size:32
Alignment explanation
Indices: 2120364--2120464 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 32
2120354 AAAGATAGAG
2120364 ATAAACAACATAATAAATAATATATGATAAAAT
1 ATAAACAACATAATAAATAATATAT-ATAAAAT
* * * *
2120397 ATAAATAA-ATAATAGATAATATATATAATAG
1 ATAAACAACATAATAAATAATATATATAAAAT
* *
2120428 ACAACATAACATAATAATATAAATATATAATAAAAT
1 ATAA-ACAACATAATAA-AT-AATATAT-ATAAAAT
2120464 A
1 A
2120465 ATATACGATA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
31 8 0.15
32 19 0.35
33 13 0.24
34 2 0.04
35 7 0.13
36 6 0.11
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (32 bp):
ATAAACAACATAATAAATAATATATATAAAAT
Found at i:2120426 original size:29 final size:29
Alignment explanation
Indices: 2120346--2120465 Score: 82
Period size: 33 Copynumber: 3.9 Consensus size: 29
2120336 TGTTAAAATT
* * * *
2120346 ATAATAATAAAGATAGAGATAAACAACATA
1 ATAATAATATATATA-ATATAAATAACATA
2120376 ATAAATAATATATGATAAAATATAAATAA-ATA
1 AT-AATAATATAT-AT--AATATAAATAACATA
*
2120408 ATAGATAATATATATAATAGACAACATAACATA
1 ATA-ATAATATATATAAT--ATAA-ATAACATA
*
2120441 ATAATATAAATATATAATA-AAATAA
1 ATAATA-ATATATATAATATAAATAA
2120466 TATACGATAA
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
29 7 0.09
30 4 0.05
31 15 0.20
32 23 0.31
33 24 0.32
34 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (29 bp):
ATAATAATATATATAATATAAATAACATA
Found at i:2121862 original size:17 final size:17
Alignment explanation
Indices: 2121840--2121872 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2121830 TAAATGGACT
*
2121840 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
2121857 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
2121873 TAATATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:2122762 original size:44 final size:44
Alignment explanation
Indices: 2122139--2122737 Score: 855
Period size: 44 Copynumber: 13.6 Consensus size: 44
2122129 ACTCAGGAAC
* * * * *
2122139 GCCAGATCTGTTATCTTCGTTCTGCTCTCTAACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
2122183 GCCAAATCTGCTATCTTTGATCTACTCTTTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
2122227 ACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
2122271 GCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* *
2122315 ACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
2122359 GCCAAATCTGCTATCTTCGATCTGTTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * **
2122403 GCCAAATCTACTATCTTCAATCTGCTC-CTTGTA-AACGCA-AGGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAATACAGA-GAT
* *
2122447 GCCAAATCAT-CTATCTTCAATCTGCTCTCTAACAATACAGAGAT
1 GCCAAATC-TGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
2122491 ACCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
2122535 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * *
2122579 ACCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
2122623 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
* * * *
2122667 ACCAAATCTGCTATCATCGATCTGCTCTCTGACAATATAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
*
2122711 GCCAAATCTACTATCTTCGATCTGCTC
1 GCCAAATCTGCTATCTTCGATCTGCTC
2122738 ATTGTAAACG
Statistics
Matches: 496, Mismatches: 51, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
43 4 0.01
44 488 0.98
45 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:2122983 original size:87 final size:87
Alignment explanation
Indices: 2122885--2123044 Score: 320
Period size: 87 Copynumber: 1.8 Consensus size: 87
2122875 ACAATACATA
2122885 GATGCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAAGCCAAATCTACCATGTCTTCG
1 GATGCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAAGCCAAATCTACCATGTCTTCG
2122950 ATCTGCTCCTTGTAAACGCAAG
66 ATCTGCTCCTTGTAAACGCAAG
2122972 GATGCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAAGCCAAATCTACCATGTCTTCG
1 GATGCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAAGCCAAATCTACCATGTCTTCG
2123037 ATCTGCTC
66 ATCTGCTC
2123045 TCCGTCGAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAAGCCAAATCTACCATGTCTTCG
ATCTGCTCCTTGTAAACGCAAG
Found at i:2123020 original size:41 final size:41
Alignment explanation
Indices: 2122888--2123023 Score: 121
Period size: 41 Copynumber: 3.2 Consensus size: 41
2122878 ATACATAGAT
2122888 GCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAA
1 GCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAA
* * *** * ** * *
2122929 GCCAAATCTACCATGTCTTCGATCTGC-TCCTTGTAAACGCAAGGAT
1 GCCAAA--T--CA--TCTTAGATCTTCTTCAGCGTAAACACGTGAAA
2122975 GCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAA
1 GCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAA
2123016 GCCAAATC
1 GCCAAATC
2123024 TACCATGTCT
Statistics
Matches: 68, Mismatches: 20, Indels: 14
0.67 0.20 0.14
Matches are distributed among these distances:
40 10 0.15
41 25 0.37
42 2 0.03
43 1 0.01
44 1 0.01
45 2 0.03
46 17 0.25
47 10 0.15
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
GCCAAATCATCTTAGATCTTCTTCAGCGTAAACACGTGAAA
Found at i:2123059 original size:218 final size:218
Alignment explanation
Indices: 2122711--2123145 Score: 651
Period size: 218 Copynumber: 2.0 Consensus size: 218
2122701 ATATAGAGAC
*
2122711 GCCAAATCTACTATCTTCGATCTGCTCATTGTAAACGCAAGGATGCCAAATCATCTTGGATCTAC
1 GCCAAATCTACTATCTTCGATCTGCTCATTGTAAACGCAAGGATGCCAAATCATCTTAGATCTAC
* * * ** * * *
2122776 TTTGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGG
66 TTTCATGCGAAAACATCCGAAAGCCAAATCTACCATGTCTTCGATCTGCTCTCCGTCGAATATGG
*
2122841 AGATGCCAAATCTGTTTATTCGATTTGTTCTCTGACAATACATAGATGCCAAATCATCTTAGATC
131 AGATGCCAAATCTGTTTATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATC
* *
2122906 TTCTTCAGCGTAAACACGTGAAA
196 TGCTTCAGCGTAAACACCTGAAA
* *
2122929 GCCAAATCTACCATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTAGATCT
1 GCCAAATCTA-C-TATCTTCGATCTGCTCATTGTAAACGCAAGGATGCCAAATCATCTTAGATCT
* * *
2122994 TC-TTCA-GCGTAAACA-CGTGAAAGCCAAATCTACCATGTCTTCGATCTGCTCTCCGTCGAATA
64 ACTTTCATGCGAAAACATC-CGAAAGCCAAATCTACCATGTCTTCGATCTGCTCTCCGTCGAATA
*
2123056 TGGAGATGCCAAATCTGTTTATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGG
128 TGGAGATGCCAAATCTGTTTATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAG
*
2123121 ATCTGCTTTAGCGTAAACACCTGAA
193 ATCTGCTTCAGCGTAAACACCTGAA
2123146 GGTCAGATCT
Statistics
Matches: 195, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
217 1 0.01
218 140 0.72
219 4 0.02
220 50 0.26
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (218 bp):
GCCAAATCTACTATCTTCGATCTGCTCATTGTAAACGCAAGGATGCCAAATCATCTTAGATCTAC
TTTCATGCGAAAACATCCGAAAGCCAAATCTACCATGTCTTCGATCTGCTCTCCGTCGAATATGG
AGATGCCAAATCTGTTTATTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATC
TGCTTCAGCGTAAACACCTGAAA
Found at i:2135053 original size:32 final size:33
Alignment explanation
Indices: 2134992--2135093 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 33
2134982 TTAAAATTAT
*
2134992 AATAATA-AAGAT-AAAGATAAACAACATAATA
1 AATAATATATGATAAAAGATAAACAACATAATA
* *
2135023 AATAATATATGATAAAATATAAATAA-ATAATA
1 AATAATATATGATAAAAGATAAACAACATAATA
* * * *
2135055 GATAATATAT-ATAATAGACAACATAACATAATA
1 AATAATATATGATAAAAGATAA-ACAACATAATA
2135088 ATATAA
1 A-ATAA
2135094 ATAAATAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
31 15 0.26
32 23 0.40
33 16 0.28
34 4 0.07
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (33 bp):
AATAATATATGATAAAAGATAAACAACATAATA
Found at i:2135103 original size:16 final size:16
Alignment explanation
Indices: 2135034--2135109 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
2135024 ATAATATATG
2135034 ATAA-AATATAAATAA
1 ATAATAATATAAATAA
* *
2135049 ATAATAGATA-ATATAT
1 ATAATA-ATATAAATAA
* *
2135065 ATAATAGACA-ACATAA
1 ATAATA-ATATAAATAA
2135081 CATAATAATATAAATAA
1 -ATAATAATATAAATAA
*
2135098 ATAATAAAATAA
1 ATAATAATATAA
2135110 TATACGATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
15 4 0.08
16 31 0.63
17 14 0.29
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (16 bp):
ATAATAATATAAATAA
Found at i:2135108 original size:21 final size:22
Alignment explanation
Indices: 2135084--2135124 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2135074 AACATAACAT
2135084 AATAATATA-AATAAATAATAA
1 AATAATATACAATAAATAATAA
*
2135105 AATAATATACGATAAATAAT
1 AATAATATACAATAAATAAT
2135125 TTTTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AATAATATACAATAAATAATAA
Found at i:2135191 original size:22 final size:23
Alignment explanation
Indices: 2135161--2135211 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
2135151 TAAAATAAGT
* *
2135161 AATATATAAAATATTTA-AAATA
1 AATAAATAAAAAATTTAGAAATA
2135183 AATAAATAAAAAATTTAGAAATA
1 AATAAATAAAAAATTTAGAAATA
*
2135206 TATAAA
1 AATAAA
2135212 AAAGGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AATAAATAAAAAATTTAGAAATA
Found at i:2136490 original size:17 final size:17
Alignment explanation
Indices: 2136468--2136500 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2136458 TAAATGGACT
*
2136468 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
2136485 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
2136501 AATTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:2137884 original size:44 final size:44
Alignment explanation
Indices: 2136868--2137876 Score: 1146
Period size: 44 Copynumber: 23.1 Consensus size: 44
2136858 CGAATTTGTC
* * * *
2136868 ATCTTCGATCT-ATCCTCTGTCAATACAGATACTCCAAATCTGCT
1 ATCTTCGATCTGCT-CTCTGACAATACAGAGACGCCAAATCTGCT
* ** *
2136912 ATCTTCGATCTGCTTTCTGTTAATACAGAGATGCCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * * * *
2136955 CATATTCAATCTGCCCTCTGTCAAT----ATA--CCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * * ** *
2136994 ATCTTCGATCCGTTCTTTGTCAATACAGAGACGAAAAATCTGTT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * **
2137038 ATCTTTGATCTGCTCTCTGACAGTACAGAGACGTCAAATCTATT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * * *
2137082 ATCTTTGATCTGCTCTCTGTCAATACAGAAATGTCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* *
2137126 ATCTTCGATCTGCTCTCTGACAATATAGAGACGCCAAATCT-AT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* *
2137169 CATCTTCGATATGCTCTCTGTCAATACAGAGACGCCAAATCTGCT
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * **
2137214 ATCTTTGATCTGCTCTCTGTCAATACAGAAATACCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
2137258 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * * * * *
2137302 ATCTTCGGTTTCCTCTCTGCCAATACAGAGACTCCAAATCTTCC
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
*
2137346 ATCTTCGATCTGCTCTCT-ATCAATACAGAGACGCCAAACCTG-T
1 ATCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCT
2137389 CATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
2137434 ATCTTCGATCTGCTCTCT-ACCAATACAAAAATGTCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCT
* * *
2137478 ATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAACCTGTT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
2137522 ATCTTTGATCTGCTCTCTGACAATACAGAGACTCCAAATCTTCC
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* **
2137566 ATCTTCGATCTGCTCTCT-ATCAATACAGAGACGCCAAACCTATT
1 ATCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCT
2137610 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * * * *
2137654 ATCTTTGATCTGCTCTCTGCCAATACAAAAATGTCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
*
2137698 ATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
2137741 CATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAACCTGTT
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
2137786 ATCTTCGATCTGCTTTCTGACAATACAGAGATGCCAAATTTGTT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
*
2137830 ATTTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
2137874 ATC
1 ATC
2137877 GGTGATCTAT
Statistics
Matches: 821, Mismatches: 123, Indels: 42
0.83 0.12 0.04
Matches are distributed among these distances:
38 27 0.03
39 1 0.00
40 2 0.00
42 2 0.00
43 5 0.01
44 777 0.95
45 7 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
Found at i:2142834 original size:124 final size:124
Alignment explanation
Indices: 2142614--2142864 Score: 502
Period size: 124 Copynumber: 2.0 Consensus size: 124
2142604 GTTACAAAAA
2142614 TGATCTGGAACCTCAGAAATACTCATCTGAATTGGTCTCACATCCTCTTTTTTATTTGATTTAAT
1 TGATCTGGAACCTCAGAAATACTCATCTGAATTGGTCTCACATCCTCTTTTTTATTTGATTTAAT
2142679 CATGAAAGCCAATGTTGCCAAAGCGTCCGCCATCTGATTTTCGTCCCGTGGGAGATAAC
66 CATGAAAGCCAATGTTGCCAAAGCGTCCGCCATCTGATTTTCGTCCCGTGGGAGATAAC
2142738 TGATCTGGAACCTCAGAAATACTCATCTGAATTGGTCTCACATCCTCTTTTTTATTTGATTTAAT
1 TGATCTGGAACCTCAGAAATACTCATCTGAATTGGTCTCACATCCTCTTTTTTATTTGATTTAAT
2142803 CATGAAAGCCAATGTTGCCAAAGCGTCCGCCATCTGATTTTCGTCCCGTGGGAGATAAC
66 CATGAAAGCCAATGTTGCCAAAGCGTCCGCCATCTGATTTTCGTCCCGTGGGAGATAAC
2142862 TGA
1 TGA
2142865 AAGTGTCGTT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 127 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (124 bp):
TGATCTGGAACCTCAGAAATACTCATCTGAATTGGTCTCACATCCTCTTTTTTATTTGATTTAAT
CATGAAAGCCAATGTTGCCAAAGCGTCCGCCATCTGATTTTCGTCCCGTGGGAGATAAC
Found at i:2152337 original size:27 final size:29
Alignment explanation
Indices: 2152276--2152337 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
2152266 TATTTAAAGC
*
2152276 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
2152305 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
2152332 AAATAT
1 AAATAT
2152338 GTGCAAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:2152489 original size:14 final size:14
Alignment explanation
Indices: 2152470--2152521 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
2152460 AGTAACATTA
2152470 AATATAATAAAAAT
1 AATATAATAAAAAT
*
2152484 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
2152499 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
2152513 GATATAATA
1 AATATAATA
2152522 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:2152524 original size:20 final size:19
Alignment explanation
Indices: 2152494--2152538 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
2152484 AATATAATGA
2152494 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
2152516 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
2152535 ATAA
1 ATAA
2152539 ATAAAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:2152541 original size:20 final size:22
Alignment explanation
Indices: 2152471--2152538 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
2152461 GTAACATTAA
* * * *
2152471 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
2152493 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
2152514 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
2152533 ATATAA
1 ATATAA
2152539 ATAAAACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:2152609 original size:20 final size:19
Alignment explanation
Indices: 2152584--2152625 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
2152574 AGTAAAAATA
2152584 ATATATATA-ATAAATCATTT
1 ATATATATACAT-AAT-ATTT
2152604 ATATATATACATAATATTT
1 ATATATATACATAATATTT
2152623 ATA
1 ATA
2152626 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 12 0.57
21 2 0.10
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATATACATAATATTT
Found at i:2155215 original size:2 final size:2
Alignment explanation
Indices: 2155208--2155238 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2155198 TTAGACATTT
2155208 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2155239 AACATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2160883 original size:43 final size:43
Alignment explanation
Indices: 2160776--2160890 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
2160766 ACGATGTCGA
* ** * *
2160776 TGTCCCACACATGGTCTTACACATAATCGCAATACAAATTCAC
1 TGTCCCACACAAGGTCTTACATGTAATCACAATACAAATCCAC
* *
2160819 TATCCCACACAGGGTCTTACATGTAATCACAATA-AAATGCCAC
1 TGTCCCACACAAGGTCTTACATGTAATCACAATACAAAT-CCAC
2160862 TGTCCCACACAAGGTCTTACATGTAATCA
1 TGTCCCACACAAGGTCTTACATGTAATCA
2160891 TATCTCGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 4 0.06
43 59 0.94
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (43 bp):
TGTCCCACACAAGGTCTTACATGTAATCACAATACAAATCCAC
Found at i:2163287 original size:22 final size:22
Alignment explanation
Indices: 2163262--2163305 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2163252 AATTATTAAC
*
2163262 ATAATGATTTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
2163284 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
2163306 GATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:2163290 original size:12 final size:11
Alignment explanation
Indices: 2163268--2163305 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2163258 TAACATAATG
2163268 ATTTTTAATTA
1 ATTTTTAATTA
2163279 ATTTTATAATTA
1 ATTTT-TAATTA
*
2163291 A-TTTTGATTA
1 ATTTTTAATTA
2163301 ATTTT
1 ATTTT
2163306 GATTATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 6 0.25
11 11 0.46
12 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
ATTTTTAATTA
Found at i:2163876 original size:19 final size:17
Alignment explanation
Indices: 2163852--2163891 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
2163842 CACACCATAA
*
2163852 CTTTCTCATCTCTTCTCTT
1 CTTTCTCAACT-TTCTC-T
2163871 CTTTCTCAACTTTCTCT
1 CTTTCTCAACTTTCTCT
2163888 CTTT
1 CTTT
2163892 ATTTTTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 10 0.50
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.57
Consensus pattern (17 bp):
CTTTCTCAACTTTCTCT
Found at i:2169524 original size:22 final size:22
Alignment explanation
Indices: 2169482--2169526 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2169472 ATAGTAATAA
* *
2169482 TTTTTAATTATTTCTGTCAATT
1 TTTTTAATTATATCTGACAATT
2169504 TTTTTAATTTATATCT-ACAATT
1 TTTTTAA-TTATATCTGACAATT
2169526 T
1 T
2169527 ATATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTAATTATATCTGACAATT
Found at i:2169833 original size:55 final size:55
Alignment explanation
Indices: 2169749--2169860 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
2169739 ATTTCAAAAT
* ** *
2169749 ACATAGTGATAATAATTAGAAGATAATTGAAGTAACTAAGTAAGCAAAGATGCTA
1 ACATAGTGACAATAATTAGAAGATAATTGAAACAACTAAATAAGCAAAGATGCTA
* *
2169804 ACATAGTGACAATAATTAGAAGATAATTGAAACAACTAAATAAGTAAATATGCTA
1 ACATAGTGACAATAATTAGAAGATAATTGAAACAACTAAATAAGCAAAGATGCTA
2169859 AC
1 AC
2169861 TCATATATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (55 bp):
ACATAGTGACAATAATTAGAAGATAATTGAAACAACTAAATAAGCAAAGATGCTA
Found at i:2172541 original size:38 final size:39
Alignment explanation
Indices: 2172493--2172570 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
2172483 AAGTTTGAAC
* * * *
2172493 AAAAAGTATTAAGTTTAAAAAATGAGACAGATTTGAAGT
1 AAAAAGTATTAAGTCTAAAAAATAAAACAGATTTAAAGT
2172532 AAAAA-TATTAAGTCTAAAAAATAAAACAGATTTAAAGT
1 AAAAAGTATTAAGTCTAAAAAATAAAACAGATTTAAAGT
2172570 A
1 A
2172571 TGGATAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 30 0.86
39 5 0.14
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (39 bp):
AAAAAGTATTAAGTCTAAAAAATAAAACAGATTTAAAGT
Found at i:2183428 original size:69 final size:69
Alignment explanation
Indices: 2183317--2184270 Score: 652
Period size: 69 Copynumber: 13.8 Consensus size: 69
2183307 ACGACATTTG
* ** * *
2183317 TGTCATACTAAGGCTCGCAGGATTAAAACTGTAGCCCCCAACACAGTTAGCAAGAGCAAAGCTCT
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCC
**
2183382 CATT
66 CAGC
* *
2183386 TGTCATAATAAGGCTCGCAGGATTAAAACCACAGCCACCAACACAGTTAGCAAGAGCAAAGCTCC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCC
**
2183451 CATT
66 CAGC
* * * * * *
2183455 TGTCATAATAAGGCTCGCAGGA-TAAAA-AATTGCACCCTCTAACATAGTTAGCGAGAGAAAAGC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCA-T--AGCCTCCAACACAGTTAGCAAGAGCAAAGC
*
2183518 TACCAGC
63 TCCCAGC
* * ** * * * * *
2183525 TGTCATAATAAGGCTCGTAGGATAAAAACTGTAGCTTCCAACATAATTAGCGAGAG-AAGAACTC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAA-AGCTC
*
2183589 CCAGT
65 CCAGC
* * * * **
2183594 TGTCGT-ATAAAGGGTCGC-GAGATTAAAAACCATAGCTTCCAACACAATTAGTGAGAGCAAAGC
1 TGTCATAAT-AAGGCTCGCAG-GATT-AAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGC
2183657 TCCCAGC
63 TCCCAGC
* * * ** * * * * * * * *
2183664 TCTTATAATAAGGATCATAGGATAAAAAACCACAACCTCTAACATATTTAACAAGAGCAAAGTTC
1 TGTCATAATAAGGCTCGCAGGAT-TAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTC
*
2183729 CCAAC
65 CCAGC
* * * * * * * * *
2183734 TATCATACTAAGGCTCGCAGGATTAAAATCGTAG-CTCTAACATAGTTAACGATAGCAAAGCTCC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCC
2183798 CAGC
66 CAGC
* * * * * * * ** *
2183802 TGTCCA-ATTAGGGCTCGCAGGATTAAAACCACAACCTCTAACATAGTCAGTGAGATCAAAGCTC
1 TGT-CATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTC
2183866 CCAGC
65 CCAGC
* * * *** * * * * * *
2183871 TATCATACTAAAGCTTATAGGATTAAAATCGTAACCTTCAACACAGTTAACGAA-AGTAAAGCTC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGC-AAGAGCAAAGCTC
* *
2183935 TCAAC
65 CCAGC
* * * * * * * * *
2183940 TATCATAACAAGACTAGTAGGATAAAAAATCATAGGCTCCAACACGGTTAGCAAGAGC-AAGCTC
1 TGTCATAATAAGGCTCGCAGGAT-TAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTC
*
2184004 CCAAC
65 CCAGC
* * * * * *
2184009 TGTCATACTAAGGCTTGCAGGATTAAAACCACAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCC
*
2184074 CAAC
66 CAGC
* * * ** *
2184078 TGTCATACTAAGGCTTGCGGGATTAAAACTGTAGCCTCCAACATAGTTAGCGAA-AGCAAAGCTC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGC-AAGAGCAAAGCTC
** *
2184142 TTAGT
65 CCAGC
* * * * *
2184147 TGTCATACTAAGGCTCACAGGATT-AAATCATATCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCC
2184211 CAGC
66 CAGC
* * **** *
2184215 TATCATAATAAGGCTCGTAGGATTAAAATTGCAGCCTCCAACACAATTAGCAAGAG
1 TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAG
2184271 TTACAAACTT
Statistics
Matches: 696, Mismatches: 166, Indels: 46
0.77 0.18 0.05
Matches are distributed among these distances:
67 2 0.00
68 144 0.21
69 367 0.53
70 173 0.25
71 10 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (69 bp):
TGTCATAATAAGGCTCGCAGGATTAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCC
CAGC
Found at i:2184140 original size:138 final size:138
Alignment explanation
Indices: 2183317--2184270 Score: 767
Period size: 138 Copynumber: 6.9 Consensus size: 138
2183307 ACGACATTTG
* * *
2183317 TGTCATACTAAGGCTCGCAGGATTAAAA-CTGTAGCCCCCAACACAGTTAGCAAGAGCAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATTAAAATC-GTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTC
* ** * * * *
2183381 TCATTTGTCATAATAAGGCTCGCAGGATTAAAACCACAGCCACCAACACAGTTAGCAAGAGCAAA
65 CCAGCTGTCATAATAAGGCTCGTAGGATTAAAACTACAGCCTCCAACATAGTTAGCAAGAGCAAA
**
2183446 GCTCCCATT
130 GCTCCCAGC
* * * * * * * *
2183455 TGTCATAATAAGGCTCGCAGGATAAAAAATTGCACCCTCTAACATAGTTAGCGAGAGAAAAGCTA
1 TGTCATACTAAGGCTCGCAGGAT-TAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTC
* ** * * *
2183520 CCAGCTGTCATAATAAGGCTCGTAGGATAAAAACTGTAGCTTCCAACATAATTAGCGAGAG-AAG
65 CCAGCTGTCATAATAAGGCTCGTAGGATTAAAACTACAGCCTCCAACATAGTTAGCAAGAGCAA-
* *
2183584 AACTCCCAGT
129 AGCTCCCAGC
* * * * * * * *
2183594 TGTCGTA-TAAAGGGTCGC-GAGATTAAAAACCATAGCTTCCAACACAATTAGTGAGAGCAAAGC
1 TGTCATACT-AAGGCTCGCAG-GATT-AAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGC
* * * * * * * * * *
2183657 TCCCAGCTCTTATAATAAGGATCATAGGATAAAAAACCACAACCTCTAACATATTTAACAAGAGC
63 TCCCAGCTGTCATAATAAGGCTCGTAGGAT-TAAAACTACAGCCTCCAACATAGTTAGCAAGAGC
* *
2183722 AAAGTTCCCAAC
127 AAAGCTCCCAGC
* * * *
2183734 TATCATACTAAGGCTCGCAGGATTAAAATCGTAG-CTCTAACATAGTTAACGATAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATTAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
* * * * * * * ** *
2183798 CAGCTGTCCA-ATTAGGGCTCGCAGGATTAAAACCACAACCTCTAACATAGTCAGTGAGATCAAA
66 CAGCTGT-CATAATAAGGCTCGTAGGATTAAAACTACAGCCTCCAACATAGTTAGCAAGAGCAAA
2183862 GCTCCCAGC
130 GCTCCCAGC
* * *** * * * *
2183871 TATCATACTAAAGCTTATAGGATTAAAATCGTAACCT-TCAACACAGTTAACGAAAGTAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATTAAAATCGTAGCCTCT-AACACAGTTAGCGAGAGCAAAGCTC
* * * * * * * * * * **
2183935 TCAACTATCATAACAAGACTAGTAGGATAAAAAATCATAGGCTCCAACACGGTTAGCAAGAGC-A
65 CCAGCTGTCATAATAAGGCTCGTAGGATTAAAACT-ACAGCCTCCAACATAGTTAGCAAGAGCAA
*
2183999 AGCTCCCAAC
129 AGCTCCCAGC
* * ** *
2184009 TGTCATACTAAGGCTTGCAGGATTAAAACCACAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATTAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
* * * ** **
2184074 CAACTGTCATACTAAGGCTTGCGGGATTAAAACTGTAGCCTCCAACATAGTTAGCGAA-AGCAAA
66 CAGCTGTCATAATAAGGCTCGTAGGATTAAAACTACAGCCTCCAACATAGTTAGC-AAGAGCAAA
** *
2184138 GCTCTTAGT
130 GCTCCCAGC
* * * *
2184147 TGTCATACTAAGGCTCACAGGATT-AAATCATATCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATTAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
* * * * *
2184211 CAGCTATCATAATAAGGCTCGTAGGATTAAAATTGCAGCCTCCAACACAATTAGCAAGAG
66 CAGCTGTCATAATAAGGCTCGTAGGATTAAAACTACAGCCTCCAACATAGTTAGCAAGAG
2184271 TTACAAACTT
Statistics
Matches: 633, Mismatches: 164, Indels: 39
0.76 0.20 0.05
Matches are distributed among these distances:
136 2 0.00
137 171 0.27
138 227 0.36
139 182 0.29
140 47 0.07
141 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (138 bp):
TGTCATACTAAGGCTCGCAGGATTAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
CAGCTGTCATAATAAGGCTCGTAGGATTAAAACTACAGCCTCCAACATAGTTAGCAAGAGCAAAG
CTCCCAGC
Found at i:2190628 original size:15 final size:15
Alignment explanation
Indices: 2190608--2190639 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2190598 TACAGTTAAT
2190608 TTATATAATTTACTA
1 TTATATAATTTACTA
2190623 TTATATAATTTACTA
1 TTATATAATTTACTA
2190638 TT
1 TT
2190640 CATTTCAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATATAATTTACTA
Found at i:2201057 original size:13 final size:13
Alignment explanation
Indices: 2201039--2201091 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
2201029 AACACTAATC
2201039 TCACACGCCCGTG
1 TCACACGCCCGTG
2201052 TCACACGCCCGTG
1 TCACACGCCCGTG
*
2201065 TCACACGCCCATG
1 TCACACGCCCGTG
*
2201078 TCACACCCCCGTG
1 TCACACGCCCGTG
2201091 T
1 T
2201092 GGATCGCGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.17, C:0.47, G:0.19, T:0.17
Consensus pattern (13 bp):
TCACACGCCCGTG
Found at i:2209149 original size:71 final size:71
Alignment explanation
Indices: 2209051--2209182 Score: 160
Period size: 72 Copynumber: 1.9 Consensus size: 71
2209041 TTGTAATGTA
* * * * *
2209051 TAGTTCATGTTACCCGTCCGGGATAAACCT-TTAAAC-AACCTCAGGTTGCTCATTCGAGCTGAA
1 TAGTTCAGGTTACCCGTCCGAGATAAACCTATAAAACGAA-ATCAGGTTACTCATTCGAGCTGAA
2209114 TATATAT
65 TATATAT
* * *
2209121 TAGTGTCAGGTTACTCGTCCGAGCTAAACCTATAAAACGAAATCAGGTTACTCGTTCGAGCT
1 TAGT-TCAGGTTACCCGTCCGAGATAAACCTATAAAACGAAATCAGGTTACTCATTCGAGCT
2209183 AAACCTATGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 4 0.08
71 22 0.43
72 23 0.45
73 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (71 bp):
TAGTTCAGGTTACCCGTCCGAGATAAACCTATAAAACGAAATCAGGTTACTCATTCGAGCTGAAT
ATATAT
Found at i:2213148 original size:50 final size:50
Alignment explanation
Indices: 2213073--2213616 Score: 572
Period size: 50 Copynumber: 10.8 Consensus size: 50
2213063 TGAAGCTCTT
* * * *
2213073 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* *
2213123 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * * * *
2213173 TGATACACATAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGCTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATC
* **** * *
2213224 GGGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * *
2213274 TGGTACATGTAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * * *
2213324 TGATACACGTAGTAGCCTGCACTTGGTACTACACACGTGATCGAAGCTAT-
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATC
* * * * *
2213374 TGGGTACACATAGTAGCTTGCACTTAATACTACACATGCGACCTAACAATC
1 T-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * *
2213425 TGGTACACGTAGTAGCCTGCACTTAGTACTGCATACGTGACTTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * * * * *
2213475 TGATACACGTAGTAGCCTACATTTAGTACTACACATGTGATCGAAGTTAA-C
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATC
* * * * *
2213526 -GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATC
1 TG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
*
2213576 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACTTGAC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
2213617 TCACAACGGA
Statistics
Matches: 401, Mismatches: 84, Indels: 18
0.80 0.17 0.04
Matches are distributed among these distances:
49 2 0.00
50 284 0.71
51 114 0.28
52 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
Found at i:2213256 original size:101 final size:100
Alignment explanation
Indices: 2213073--2213616 Score: 541
Period size: 101 Copynumber: 5.4 Consensus size: 100
2213063 TGAAGCTCTT
* * * * * * * *
2213073 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAG
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGAACTATCGGGTACACATAGTAG
* *
2213138 CCTGCACTTAGTACTACACACATGACCTAACCATC
66 CCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * * ***
2213173 TGATACACATAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGCTATCGGGTATGTATAGTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CTATCGGGTACACATAGTA
* *
2213238 GCCTGCACTTAGTACTACACATGCGACCTAACAATC
65 GCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * * * * *
2213274 TGGTACATGTAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTAGTAG
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGAACTATCGGGTACACATAGTAG
* * * *
2213339 CCTGCACTTGGTACTACACACGTGATCGAAGCTAT-
66 CCTGCACTTAGTACTACACACGTGACCTAA-CAATC
* * * * * * * * *
2213374 TGGGTACACATAGTAGCTTGCACTTAATACTACACATGCGACCTAACAATCTGGTACACGTAGTA
1 T-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGAACTATCGGGTACACATAGTA
* * * *
2213439 GCCTGCACTTAGTACTGCATACGTGACTTAACCATC
65 GCCTGCACTTAGTACTACACACGTGACCTAACAATC
* * * * * * * * *
2213475 TGATACACGTAGTAGCCTACATTTAGTACTACACATGTGATCGAAGTTAACGAGTACGCATAGTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CTATCGGGTACACATAGTA
* * *
2213540 GCCTGCACTTAGTACTACACATGCGACCTATCAATC
65 GCCTGCACTTAGTACTACACACGTGACCTAACAATC
*
2213576 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACTTGAC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
2213617 TCACAACGGA
Statistics
Matches: 359, Mismatches: 80, Indels: 9
0.80 0.18 0.02
Matches are distributed among these distances:
100 115 0.32
101 244 0.68
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCGAACTATCGGGTACACATAGTAG
CCTGCACTTAGTACTACACACGTGACCTAACAATC
Found at i:2213617 original size:151 final size:151
Alignment explanation
Indices: 2213074--2213616 Score: 879
Period size: 151 Copynumber: 3.6 Consensus size: 151
2213064 GAAGCTCTTT
2213074 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* *
2213139 CTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
2213204 TACACGTGATCGAAGCTATCG
131 CACACGTGATCGAAGCTATCG
* * *
2213225 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* *
2213290 CTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTGGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
2213355 CACACGTGATCGAAGCTATTG
131 CACACGTGATCGAAGCTATCG
* * *
2213376 GGTACACATAGTAGCTTGCACTTAATACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
* * * * *
2213441 CTGCACTTAGTACTGCATACGTGACTTAACCATCTGATACACGTAGTAGCCTACATTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* * *
2213506 CACATGTGATCGAAGTTAACG
131 CACACGTGATCGAAGCTATCG
* *
2213527 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
*
2213592 CTGCACTTAGTACTACACACTTGAC
66 CTGCACTTAGTACTACACACGTGAC
2213617 TCACAACGGA
Statistics
Matches: 358, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 358 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGCTATCG
Found at i:2217745 original size:132 final size:132
Alignment explanation
Indices: 2217508--2217749 Score: 333
Period size: 132 Copynumber: 1.8 Consensus size: 132
2217498 GCAATATGAA
* * * * *
2217508 GATTCGAATGACCAAAAGGTCTTAACGGTCAGATCCATGAGAGCAGGATCCACCCATACACGTGG
1 GATTCGAATAACCAAAAAGTCTCAACGGTCAGATCCATGAGAGCACGACCCACCCATACACGTGG
* *
2217573 CAAGGTAGACATCAGGTTGTAACAGCTCGCAACTTACCCAACAAGTTACATTTAAACTCGATATA
66 CAAGGTAGACATCAGGTTCTAACAACTCGCAACTTACCCAACAAGTTACATTTAAACTCGATATA
2217638 AC
131 AC
* * *
2217640 GATTCGAATAACCAAAAAGTCTCAATGGTCAGGTCCATGCGAGCACGACCCACCCATACACGTGG
1 GATTCGAATAACCAAAAAGTCTCAACGGTCAGATCCATGAGAGCACGACCCACCCATACACGTGG
* * * * *
2217705 CGAGGTTGACGTCAGGTTCTAACAACTTGCAA-TGTGCCCAACAAG
66 CAAGGTAGACATCAGGTTCTAACAACTCGCAACT-TACCCAACAAG
2217750 CCGAATTTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
131 1 0.01
132 93 0.99
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (132 bp):
GATTCGAATAACCAAAAAGTCTCAACGGTCAGATCCATGAGAGCACGACCCACCCATACACGTGG
CAAGGTAGACATCAGGTTCTAACAACTCGCAACTTACCCAACAAGTTACATTTAAACTCGATATA
AC
Found at i:2218399 original size:5 final size:5
Alignment explanation
Indices: 2218389--2218413 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2218379 TTTCCTTCTC
2218389 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
2218414 GGTGAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:2219759 original size:20 final size:21
Alignment explanation
Indices: 2219736--2219776 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2219726 ATAAATTAAA
* *
2219736 AAATATTTTTTTAAAA-TAAT
1 AAATATTATTATAAAAGTAAT
2219756 AAATATTATTATAAAAGTAAT
1 AAATATTATTATAAAAGTAAT
2219777 TATTTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATATTATTATAAAAGTAAT
Found at i:2237289 original size:27 final size:28
Alignment explanation
Indices: 2237259--2237330 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
2237249 ACTCTTCATG
2237259 CCCCATGTTTATTGTCCTAACGGACT-T
1 CCCCATGTTTATTGTCCTAACGGACTAT
* * **
2237286 CCCCGTGTTTATTTTCCTAGTGGACTAT
1 CCCCATGTTTATTGTCCTAACGGACTAT
*
2237314 -CCCATGTTTACTGTCCT
1 CCCCATGTTTATTGTCCT
2237331 GACGAGCTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (28 bp):
CCCCATGTTTATTGTCCTAACGGACTAT
Found at i:2237435 original size:45 final size:45
Alignment explanation
Indices: 2237371--2237464 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
2237361 TATGGTCTTA
2237371 CATAATATTCTCATGTTTAATGTCTTGACGGACTCTATTGATTGC
1 CATAATATTCTCATGTTTAATGTCTTGACGGACTCTATTGATTGC
2237416 CATAATATTCTCATGTTTAATGTCTTGACGGACTCTATTGATTGC
1 CATAATATTCTCATGTTTAATGTCTTGACGGACTCTATTGATTGC
2237461 CATA
1 CATA
2237465 GCCAAGCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (45 bp):
CATAATATTCTCATGTTTAATGTCTTGACGGACTCTATTGATTGC
Found at i:2257627 original size:16 final size:16
Alignment explanation
Indices: 2257608--2257659 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
2257598 ATTATTAATT
2257608 TATATTA-ATATAATAA
1 TATATTATATATAA-AA
2257624 TATATTATATATAAAA
1 TATATTATATATAAAA
*
2257640 TATCTTATACT-TAAAA
1 TATATTATA-TATAAAA
2257656 TATA
1 TATA
2257660 AGTAAATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 25 0.78
17 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATTATATATAAAA
Found at i:2260704 original size:46 final size:44
Alignment explanation
Indices: 2260609--2260720 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
2260599 CCCATGCCGT
* *
2260609 GTCCTAGACATGGTCTTACACTGACACATCTCATAGCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTGACACATCTCATAGCCGATGCAC
* *
2260654 GTCCCAGACATGTCTTACACTGACTTACGTCTCGA-GGCCGATGCAC
1 GTCCCAGACATGTCTTACACTGAC--ACATCTC-ATAGCCGATGCAC
2260700 GTCCCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
2260721 AGCACTCGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
44 13 0.22
45 10 0.17
46 36 0.60
47 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (44 bp):
GTCCCAGACATGTCTTACACTGACACATCTCATAGCCGATGCAC
Found at i:2260731 original size:46 final size:46
Alignment explanation
Indices: 2260644--2260817 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
2260634 ACATCTCATA
2260644 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCGAG
* * *
2260690 GCCGATGCACGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAG
* * * * * * * *
2260736 GCCCATACGATGTCCCAGATATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCGAG
*
2260784 GCCGATGCATGTTCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
2260818 TCACAATAAC
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 55 0.53
47 24 0.23
48 24 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAG
Found at i:2264145 original size:16 final size:13
Alignment explanation
Indices: 2264111--2264138 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2264101 CTTTATTTTA
2264111 TTATTTATCATCT
1 TTATTTATCATCT
2264124 TTATTTATCATCT
1 TTATTTATCATCT
2264137 TT
1 TT
2264139 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:2266939 original size:54 final size:54
Alignment explanation
Indices: 2266880--2267041 Score: 324
Period size: 54 Copynumber: 3.0 Consensus size: 54
2266870 TATTTGAATG
2266880 TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
1 TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
2266934 TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
1 TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
2266988 TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
1 TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
2267042 AAAATTGAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (54 bp):
TATGAGATGTAATGAGTTGGTTTTGATTAGACTGAGATCATGTTTGGTGTTGGC
Found at i:2267034 original size:27 final size:27
Alignment explanation
Indices: 2266896--2267035 Score: 98
Period size: 27 Copynumber: 5.2 Consensus size: 27
2266886 ATGTAATGAG
2266896 TTGGTTTTGATTAGACTGAGATCATGT
1 TTGGTTTTGATTAGACTGAGATCATGT
* * *
2266923 TTGGTGTTGGCTATGAGA-TGTA-ATGA-G-
1 TTGGT-TTTG--ATTAGACTG-AGATCATGT
2266950 TTGGTTTTGATTAGACTGAGATCATGT
1 TTGGTTTTGATTAGACTGAGATCATGT
* * *
2266977 TTGGTGTTGGCTATGAGA-TGTA-ATGA-G-
1 TTGGT-TTTG--ATTAGACTG-AGATCATGT
2267004 TTGGTTTTGATTAGACTGAGATCATGT
1 TTGGTTTTGATTAGACTGAGATCATGT
2267031 TTGGT
1 TTGGT
2267036 GTTGGCAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
24 12 0.14
25 10 0.12
26 8 0.09
27 25 0.29
28 8 0.09
29 10 0.12
30 12 0.14
ACGTcount: A:0.21, C:0.06, G:0.31, T:0.42
Consensus pattern (27 bp):
TTGGTTTTGATTAGACTGAGATCATGT
Found at i:2273498 original size:23 final size:24
Alignment explanation
Indices: 2273468--2273562 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
2273458 AATCGATCAA
2273468 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
2273491 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
2273519 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
2273548 CCAAAACACACCAGA
1 CCAAAACACACCAGA
2273563 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:2273564 original size:29 final size:28
Alignment explanation
Indices: 2273482--2273565 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
2273472 AACACACCAG
* *
2273482 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
2273510 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
2273538 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
2273566 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:2280415 original size:17 final size:18
Alignment explanation
Indices: 2280390--2280426 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2280380 TCTTTTAAAA
2280390 ATTATAAAT-ATATAAATT
1 ATTATAAATGATA-AAATT
2280408 ATTA-AAATGATAAAATT
1 ATTATAAATGATAAAATT
2280425 AT
1 AT
2280427 AATTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTATAAATGATAAAATT
Found at i:2285605 original size:18 final size:18
Alignment explanation
Indices: 2285566--2285698 Score: 191
Period size: 18 Copynumber: 7.5 Consensus size: 18
2285556 AATGATATGT
2285566 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
2285583 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
2285601 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
2285618 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
2285636 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
**
2285653 AATCTTAGATATGATTGG
1 AATCTTAGATATGATTAC
2285671 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
2285690 AATCTTAGA
1 AATCTTAGA
2285699 AGATATGATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 47 0.46
19 10 0.10
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:2285606 original size:35 final size:35
Alignment explanation
Indices: 2285557--2285698 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
2285547 ATAATCTTCA
* *
2285557 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
2285593 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
2285628 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
*
2285663 ATGATTGGAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
2285699 AGATATGATT
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 83 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:2291121 original size:149 final size:149
Alignment explanation
Indices: 2290851--2291150 Score: 546
Period size: 149 Copynumber: 2.0 Consensus size: 149
2290841 ATTTTTACCT
2290851 TGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCATTATCATGTTCTCTTAGACCAGG
1 TGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCATTATCATGTTCTCTTAGACCAGG
* * *
2290916 CTGGGTTTTCGGCTGATGATCTGCGAGAGTTTGTTCATTCTCTATCCTACATGTATCAAAGGAGC
66 CTGGGTTTTCGGCTGATGATCTGCAAAAGTTTGTTCAGTCTCTATCCTACATGTATCAAAGGAGC
*
2290981 ACTATAGCCATATCTGTTG
131 ACTACAGCCATATCTGTTG
2291000 TGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCATTATCATGTTCTCTTAGACCAGG
1 TGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCATTATCATGTTCTCTTAGACCAGG
*
2291065 CTGGGTTTTCGGCTGATGATCTGCAAAAGTTTGTTCAGTCTCTATCCTACATGTATCAAATGAGC
66 CTGGGTTTTCGGCTGATGATCTGCAAAAGTTTGTTCAGTCTCTATCCTACATGTATCAAAGGAGC
*
2291130 ACTACAGCCATATTTGTTG
131 ACTACAGCCATATCTGTTG
2291149 TG
1 TG
2291151 CCTCCTATTT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 145 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (149 bp):
TGGTACCCATGCTGGAATGATTGGAATCACGAGGCAGACCCATTATCATGTTCTCTTAGACCAGG
CTGGGTTTTCGGCTGATGATCTGCAAAAGTTTGTTCAGTCTCTATCCTACATGTATCAAAGGAGC
ACTACAGCCATATCTGTTG
Found at i:2292278 original size:44 final size:44
Alignment explanation
Indices: 2292230--2292315 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
2292220 ATTTCAACAA
* *
2292230 GGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGTAGATTT
1 GGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTT
2292274 GGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGAT
1 GGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGAT
2292316 CTGACCTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (44 bp):
GGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTT
Found at i:2292531 original size:107 final size:107
Alignment explanation
Indices: 2292343--2292794 Score: 544
Period size: 119 Copynumber: 4.0 Consensus size: 107
2292333 ATACTGAAGC
*
2292343 AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGTAGATTTGAC
1 AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
*
2292408 TCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGT
66 TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGT
2292450 AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
1 AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
*
2292515 TCTCAGACGTTTTCAAATATAGCAGATCTAACCTTCAGATGTTTATACT
66 TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATG-------T
* * *
2292564 GAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGAT
1 -----AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGAT
* * *
2292629 TTGACTCTCAGATGTTCTCAAATATAACAGATTTAACCTTCAGATGTTTATACTGAAGT
61 TTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTC--A-G-----A-T---GT
* * * *
2292688 AGATCCAAGATGATTTGGTATTCTTATGTTTACAAGAAACAAATCGAGGTCATAGCAGATTTGAC
1 AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
* * *
2292753 TCTCAGACGTTTTCAAATATAGCAGATCTAAGCTTCAAATGT
66 TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGT
2292795 TTATACTGAA
Statistics
Matches: 301, Mismatches: 20, Indels: 48
0.82 0.05 0.13
Matches are distributed among these distances:
107 105 0.35
110 1 0.00
111 1 0.00
114 1 0.00
117 1 0.00
119 186 0.62
121 1 0.00
122 1 0.00
124 1 0.00
127 1 0.00
128 1 0.00
131 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (107 bp):
AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGT
Found at i:2292666 original size:119 final size:119
Alignment explanation
Indices: 2292450--2292888 Score: 662
Period size: 119 Copynumber: 3.7 Consensus size: 119
2292440 CTTCAGATGT
* *
2292450 AGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
1 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGAC
*
2292515 TCTCAGACGTTTTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
66 TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
2292569 AGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGAC
1 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGAC
* * * *
2292634 TCTCAGATGTTCTCAAATATAACAGATTTAACCTTCAGATGTTTATACTGAAGT
66 TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* * * * *
2292688 AGATCCAAGATGATTTGGTATTCTTATGTTTACAAGAAACAAATCGAGGTCATAGCAGATTTGAC
1 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGAC
* * *
2292753 TCTCAGACGTTTTCAAATATAGCAGATCTAAGCTTCAAATGTTTATACTGAAGC
66 TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* * * * * *
2292807 AGATCCAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGAC
1 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGAC
* *
2292872 TCTCAAATGTTCTCAAA
66 TCTCAGACGTTCTCAAA
2292889 CATACTCAAG
Statistics
Matches: 287, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
119 287 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGAC
TCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
Found at i:2292874 original size:238 final size:238
Alignment explanation
Indices: 2292448--2292888 Score: 756
Period size: 238 Copynumber: 1.9 Consensus size: 238
2292438 ACCTTCAGAT
* *
2292448 GTAGATCCAAGATGATTTGGCATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTATGTTTACAAGAAACAAATCGAGGACATAGCAGATTTG
*
2292513 ACTCTCAGACGTTTTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAG
66 ACTCTCAGACGTTTTCAAATATAGCAGATCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAG
** * * * *
2292578 ATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGATG
131 ATGATTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATAGCAGATATGACTCTCAAATG
2292643 TTCTCAAATATAACAGATTTAACCTTCAGATGTTTATACTGAA
196 TTCTCAAATATAACAGATTTAACCTTCAGATGTTTATACTGAA
* *
2292686 GTAGATCCAAGATGATTTGGTATTCTTATGTTTACAAGAAACAAATCGAGGTCATAGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTATGTTTACAAGAAACAAATCGAGGACATAGCAGATTTG
*
2292751 ACTCTCAGACGTTTTCAAATATAGCAGATCTAAGCTTCAAATGTTTATACTGAAGCAGATCCAAG
66 ACTCTCAGACGTTTTCAAATATAGCAGATCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAG
* *
2292816 ATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATG
131 ATGATTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATAGCAGATATGACTCTCAAATG
2292881 TTCTCAAA
196 TTCTCAAA
2292889 CATACTCAAG
Statistics
Matches: 189, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
238 189 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (238 bp):
GTAGATCCAAGATGATTTGGCATTCTTATGTTTACAAGAAACAAATCGAGGACATAGCAGATTTG
ACTCTCAGACGTTTTCAAATATAGCAGATCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAG
ATGATTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATAGCAGATATGACTCTCAAATG
TTCTCAAATATAACAGATTTAACCTTCAGATGTTTATACTGAA
Found at i:2292917 original size:83 final size:83
Alignment explanation
Indices: 2292812--2292991 Score: 324
Period size: 83 Copynumber: 2.2 Consensus size: 83
2292802 GAAGCAGATC
2292812 CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
*
2292877 AATGTTCTCAAACATACT
66 AATGTTCTCAAACAGACT
* *
2292895 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
2292960 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
2292978 CAAGATGATTTGAC
1 CAAGATGGTTTGAC
2292992 GTCTTTACAA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 92 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:2300072 original size:38 final size:38
Alignment explanation
Indices: 2299990--2300179 Score: 218
Period size: 38 Copynumber: 4.9 Consensus size: 38
2299980 CGAACACAAC
* *
2299990 ACCAGCACGAAGCCTACGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCAGATATAAT
* * *
2300030 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
*
2300068 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* * *
2300106 TCCAGCACGAAGTCTGCAGGATTTAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* * ** *
2300144 TCCAACATAAAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACGAAGCCTGCGGG-ATTTAA-CCCAGATA
2300180 CACATCAAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
38 95 0.73
39 10 0.08
40 26 0.20
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
Found at i:2300134 original size:76 final size:78
Alignment explanation
Indices: 2299990--2300179 Score: 240
Period size: 76 Copynumber: 2.5 Consensus size: 78
2299980 CGAACACAAC
* * * * *
2299990 ACCAGCACGAAGCCTACGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGGGATTTA
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCAGGATTTA
*
2300055 ACCCGGATATAAT
66 ACCCAGATATAAT
* * *
2300068 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCCAGCACGAAGTCTGCAGGATTTA
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCAGGATTTA
2300131 ACCCAGATATAAT
66 ACCCAGATATAAT
* * ** *
2300144 TCCAACATAAAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCAGATA
2300180 CACATCAAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
76 58 0.61
77 10 0.11
78 27 0.28
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (78 bp):
ACCAGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCAGGATTTA
ACCCAGATATAAT
Found at i:2307981 original size:28 final size:28
Alignment explanation
Indices: 2307928--2307983 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
2307918 ATAGGGATTT
2307928 TCACACGGCCGAGCACACGTCTGTGTCCC
1 TCACACGGCCGAGCACACG-CTGTGTCCC
*
2307957 TCACACGGCCTAGACACAC-CTGTGTCC
1 TCACACGGCCGAG-CACACGCTGTGTCC
2307984 TCGCCCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 12 0.48
30 5 0.20
ACGTcount: A:0.20, C:0.41, G:0.21, T:0.18
Consensus pattern (28 bp):
TCACACGGCCGAGCACACGCTGTGTCCC
Found at i:2309329 original size:51 final size:47
Alignment explanation
Indices: 2309272--2309412 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 47
2309262 TAACATGCAA
*
2309272 CACATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGTTACATGAAT
1 CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-TACAT---T
* * * * *
2309323 CGCATCCATCATGAACTCGAACCACTCAATGAGCTCGGATG--C--T
1 CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTACATT
*
2309366 CACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCTACAT
1 CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-TACAT
2309413 ACCTCACGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
43 36 0.49
46 1 0.01
48 1 0.01
51 35 0.48
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (47 bp):
CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTACATT
Found at i:2309394 original size:43 final size:42
Alignment explanation
Indices: 2309325--2309440 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 42
2309315 ACATGAATCG
*
2309325 CATCCATCATGAACTCGAACCACTCAATGAGCTCGGATGCTCA
1 CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCT-A
* * * *
2309368 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCTA
1 CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCTA
*
2309410 CATACC-TCACGAACTCGGACCACTCAATGAG
1 CAT-CCATCATGAACTCGGACCACTCAATGAG
2309441 TTCAGACTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 24 0.39
43 38 0.61
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (42 bp):
CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCTA
Found at i:2312244 original size:155 final size:155
Alignment explanation
Indices: 2311962--2312278 Score: 508
Period size: 155 Copynumber: 2.0 Consensus size: 155
2311952 GAAGATGAGA
** * *
2311962 AACCAGATTGGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTCGGCAATGGGAGAAGAG
1 AACCAGATCAGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTAGGCAACGGGAGAAGAG
* * * *
2312027 ATGACTGGTTGAAAATTGGGGAATTGACAATATTTGGGGCTACCACCATGGCAAGTCGAGACTTG
66 ATGACCGGTTGAAAATTGGGGAATTGACAATATCTGGGGCGACCACCATGGCAAGCCGAGACTTG
2312092 TGATGAATAGAGTTGGTTGAGCCAG
131 TGATGAATAGAGTTGGTTGAGCCAG
* * * *
2312117 AACCAGATCAGTGAGTAGGAGACCGTAGGCTAAAAGGATGGAGTGACTAGGCAACGGGAGAAGAG
1 AACCAGATCAGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTAGGCAACGGGAGAAGAG
* *
2312182 ATGACCGGTTGAAAATTGGGGAATTGACAGTATCTGGGGCGACCACCATGGGAAGCCGAGACTTG
66 ATGACCGGTTGAAAATTGGGGAATTGACAATATCTGGGGCGACCACCATGGCAAGCCGAGACTTG
2312247 TGATGAATAGAGTTGGTTGAGCCAG
131 TGATGAATAGAGTTGGTTGAGCCAG
2312272 AACCAGA
1 AACCAGA
2312279 ATTTAATAAG
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 148 1.00
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (155 bp):
AACCAGATCAGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTAGGCAACGGGAGAAGAG
ATGACCGGTTGAAAATTGGGGAATTGACAATATCTGGGGCGACCACCATGGCAAGCCGAGACTTG
TGATGAATAGAGTTGGTTGAGCCAG
Found at i:2317479 original size:46 final size:49
Alignment explanation
Indices: 2317243--2317610 Score: 267
Period size: 46 Copynumber: 7.7 Consensus size: 49
2317233 TAGGGCATAG
* * **
2317243 TGCCGATGCCATGTACCAGACATGGTCTTACACT-G-ACTATCGAAATCG-A
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTA-C-ATCTCGTA
* * *
2317292 GGCCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACATATCCG--
1 TGCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCT-ACATCT-CGTA
* * * * **
2317342 TGCGGATGCCATGTCCTAGACATGATCTTACACT-G-AC-ACCTCTATATA
1 TGCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTACATCT-CGTA
*
2317390 TGCCGATGCCATGTCCCAGACATAGTCTTACACT-G-AC-ACATCTCGTA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTACATCTCGTA
* *
2317437 -GCCGAT-ACATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-A
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGTA
* * * *
2317482 GGCCGATG-TATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTC-AA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGTA
* *
2317528 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GT-
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-CTCGTA
* *
2317576 GGCCGAT-ACATGTCCCAGACATGTCTTACACTAGC
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGC
2317611 ACATAAATAA
Statistics
Matches: 265, Mismatches: 35, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 75 0.28
47 30 0.11
48 63 0.24
49 32 0.12
50 33 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGTA
Found at i:2317580 original size:94 final size:94
Alignment explanation
Indices: 2317246--2317610 Score: 335
Period size: 94 Copynumber: 3.9 Consensus size: 94
2317236 GGCATAGTGC
* * *
2317246 CGATGCCATGTACCAGACATGGTCTTACACTGACTATCGA-AATCGAGGCCGACGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-ATAATCGAGGCCGATGCCATGTCCCA
*
2317310 GACATGTTCTTACACTAGCTCTCACATATCCGTG
65 GACATG-TCTTACACTAGCTCT--CATCT-CGTG
* * * *
2317344 CGGATGCCATGTCCTAGACATGATCTTACACTGACACCTC-TATAT--ATGCCGATGCCATGTCC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGAC-TCTCATA-ATCGAGGCCGATGCCATGTCC
* *
2317406 CAGACATAGTCTTACACT-G-ACACATCTCGTAG
63 CAGACAT-GTCTTACACTAGCTCTCATCTCGT-G
* * * *
2317438 CCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATG-TATGTCCC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CATAATCGAGGCCGATGCCATGTCCC
* *
2317498 AGACATGTCTTACACTAGCTCTCGTCTCAATG
64 AGACATGTCTTACACTAGCTCTCATCTC-GTG
* *
2317530 TCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATAAT-GTGGCCGAT-ACATGTCCC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATAATCGAGGCCGATGCCATGTCCC
2317592 AGACATGTCTTACACTAGC
64 AGACATGTCTTACACTAGC
2317611 ACATAAATAA
Statistics
Matches: 219, Mismatches: 28, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
90 12 0.05
91 15 0.07
92 31 0.14
93 31 0.14
94 57 0.26
95 3 0.01
96 1 0.00
97 1 0.00
98 32 0.15
99 32 0.15
100 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGAGGCCGATGCCATGTCCCAG
ACATGTCTTACACTAGCTCTCATCTCGTG
Found at i:2320651 original size:245 final size:245
Alignment explanation
Indices: 2320216--2320703 Score: 692
Period size: 245 Copynumber: 2.0 Consensus size: 245
2320206 CTGCTAGTAG
* * *
2320216 TAATTGTATTCCAATTATTACTATCGTTTATATTTCTTCATTTCCATCTATGAAAAATGTCTTCA
1 TAATCGTATTCCAATTATTACTATCGGTGATATTTCTTCATTTCCATCTATGAAAAATGTCTTCA
* *
2320281 TTGCCCTTGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAGAGGATAATTGCAAAGTT
66 TTGCCCTAGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAAAGGATAATTGCAAAGTT
* * * * *
2320346 ACCTTTTATTCTTCTGGTTGTGTTATGCAGGAACTGGAATCAGGGAAGATAGTAGTTGAGGGACC
131 ACCTTTTATTCTTATGGTTATGTTATGCAAGAACTAGAATCAGGGAAGACAGTAGTTGAGGGACC
* * * *
2320411 TAAATGGGGTAGGCTCTTTCCTCTCCATTTCAATGAATCGGCCAAGCCTT
196 TAAATGGGGCAGACTCTTTCCTCTCCATTTCAAGGAATCAGCCAAGCCTT
* *
2320461 TAATCGTATTCCAATTATTGCTATTGGTGATATTTCTTC-TTCTCCATCTATGAAAAATGTCTTC
1 TAATCGTATTCCAATTATTACTATCGGTGATATTTCTTCATT-TCCATCTATGAAAAATGTCTTC
*** * *
2320525 ATTGCCCCTAG-TTTATTTGCTAATCTACTTTCCATTGGACAACTGGTAAATGATAATTGCAAAG
65 ATTG-CCCTAGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAAAGGATAATTGCAAAG
* * * **
2320589 TTACCTTTTCTTCTTATGGTTATGTTGTGCAAGAGCTAGCGTCAGGGAAGACAGTAGTTGAGGGA
129 TTACCTTTTATTCTTATGGTTATGTTATGCAAGAACTAGAATCAGGGAAGACAGTAGTTGAGGGA
* *
2320654 CCTAAATGGGGCAGACTCTTTCCTCTCCATTTTAAGGAATTAGCCAAGCC
194 CCTAAATGGGGCAGACTCTTTCCTCTCCATTTCAAGGAATCAGCCAAGCC
2320704 CATAAATGTG
Statistics
Matches: 213, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
244 2 0.01
245 206 0.97
246 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (245 bp):
TAATCGTATTCCAATTATTACTATCGGTGATATTTCTTCATTTCCATCTATGAAAAATGTCTTCA
TTGCCCTAGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAAAGGATAATTGCAAAGTT
ACCTTTTATTCTTATGGTTATGTTATGCAAGAACTAGAATCAGGGAAGACAGTAGTTGAGGGACC
TAAATGGGGCAGACTCTTTCCTCTCCATTTCAAGGAATCAGCCAAGCCTT
Found at i:2322625 original size:29 final size:29
Alignment explanation
Indices: 2322583--2322667 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
2322573 GCATGACTAT
*
2322583 GAATGTGATTTGGGCCTAATGGTCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
2322612 GAATGTGATTTGGGCCTAATGGGGCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
2322641 GAA--TGATATTGGGCCTAGTGGGCCATA
1 GAATGTGAT-TTGGGCCTAATGGGCCATA
2322668 TACATGTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 4 0.08
28 17 0.34
29 29 0.58
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:2327774 original size:52 final size:49
Alignment explanation
Indices: 2327655--2327881 Score: 301
Period size: 49 Copynumber: 4.5 Consensus size: 49
2327645 CGGATACCCG
* * * * * * * *
2327655 GTGGCCTGCACATAGTACCACCCTTATAGTCAAAGCTACCTTATTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GACCAAGCTATC-TCTTCACAAA
*
2327706 GTAGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC--TCTTCACAAA
*
2327758 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCACAAA
* *
2327807 GTGGCCTTCACATAGTACCACACTTGTCACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCACAAA
2327856 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
2327882 AGTCACTAGT
Statistics
Matches: 162, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
49 83 0.51
50 2 0.01
51 38 0.23
52 39 0.24
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (49 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCACAAA
Found at i:2327820 original size:49 final size:49
Alignment explanation
Indices: 2327702--2327881 Score: 306
Period size: 49 Copynumber: 3.6 Consensus size: 49
2327692 ACCTTATTTA
* *
2327702 CAAAGTAGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCA
1 CAAAGTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC--TCTTCT
2327754 CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
1 CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
*
2327803 CAAAGTGGCCTTCACATAGTACCACACTTGTCACCAAGCTATCTCTTCT
1 CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
2327852 CAAAGTGGCCTTCACATAGTACCACACTTG
1 CAAAGTGGCCTTCACATAGTACCACACTTG
2327882 AGTCACTAGT
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
49 83 0.66
51 8 0.06
52 34 0.27
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (49 bp):
CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
Found at i:2329570 original size:27 final size:27
Alignment explanation
Indices: 2329540--2329683 Score: 130
Period size: 27 Copynumber: 5.3 Consensus size: 27
2329530 TACTGAAATG
** *
2329540 CCCTTGATTTGTAGAATTACCATTTTA
1 CCCTTGATTTACAAAATTACCATTTTA
* * * ** *
2329567 CCCTAGATTTATAGAATTACTGTTTCA
1 CCCTTGATTTACAAAATTACCATTTTA
*
2329594 CCCTCGATTTACAAAATTA-CAGTTTTA
1 CCCTTGATTTACAAAATTACCA-TTTTA
*
2329621 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTTGATTTACAAAATTACCATTTTA
* *
2329648 CCC-TCAGTTTACAAAATTACCGTTTTA
1 CCCTTGA-TTTACAAAATTACCATTTTA
*
2329675 CCCTCGATT
1 CCCTTGATT
2329684 GTGAATTACT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.02
27 91 0.95
28 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTTGATTTACAAAATTACCATTTTA
Found at i:2329612 original size:54 final size:54
Alignment explanation
Indices: 2329554--2329683 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
2329544 TGATTTGTAG
* * **
2329554 AATTACCATTTTACCCTAGATTTATAGAATTACTGTTTCACCCTC-GATTTACAA
1 AATTACCATTTTACCCTAGATTTACAAAATTACCATTTCACCCTCAG-TTTACAA
*
2329608 AATTA-CAGTTTTACCCTTA-ATTTACAAAATTACCATTTTACCCTCAGTTTACAA
1 AATTACCA-TTTTACCC-TAGATTTACAAAATTACCATTTCACCCTCAGTTTACAA
* *
2329662 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTAGATT
2329684 GTGAATTACT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
53 3 0.05
54 57 0.89
55 4 0.06
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (54 bp):
AATTACCATTTTACCCTAGATTTACAAAATTACCATTTCACCCTCAGTTTACAA
Found at i:2329744 original size:27 final size:27
Alignment explanation
Indices: 2329687--2329837 Score: 94
Period size: 27 Copynumber: 5.6 Consensus size: 27
2329677 CTCGATTGTG
* ** *
2329687 AATTACTAAAATACCCCT-GTAGGATAG
1 AATTACCAAAATACCCCTAGTTTG-TAA
*
2329714 AATTAACAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
2329741 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
2329768 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
2329795 AACTT-CCAAAATA-CCCTTGATTTACAA
1 AA-TTACCAAAATACCCCTAG-TTTGTAA
*
2329822 AATTACAAAAATACCC
1 AATTACCAAAATACCC
2329838 TTGACTTTCT
Statistics
Matches: 97, Mismatches: 21, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
26 5 0.05
27 85 0.88
28 7 0.07
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:2329838 original size:27 final size:28
Alignment explanation
Indices: 2329802--2329896 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 28
2329792 TAAAACTTCC
2329802 AAAATACCCTTGA-TTTACAAAATTACA
1 AAAATACCCTTGACTTTACAAAATTACA
*
2329829 AAAATACCCTTGACTTT-CTAAAAATTATA
1 AAAATACCCTTGACTTTAC--AAAATTACA
* * * * *
2329858 GAAATATCATT-AGTTTACAAAATTACT
1 AAAATACCCTTGACTTTACAAAATTACA
*
2329885 GAAATACCCTTG
1 AAAATACCCTTG
2329897 GTTTGTAGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
27 30 0.56
28 7 0.13
29 17 0.31
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAATACCCTTGACTTTACAAAATTACA
Found at i:2329983 original size:27 final size:27
Alignment explanation
Indices: 2329940--2330013 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
2329930 AAATGACTAA
*
2329940 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
2329967 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
2329994 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
2330014 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:2330017 original size:27 final size:27
Alignment explanation
Indices: 2329953--2330017 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
2329943 ACCCCTAATA
*
2329953 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
2329980 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
2330007 GGTAAAATGAC
1 GGTAAAATGAC
2330018 GAATATGCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:2330865 original size:25 final size:25
Alignment explanation
Indices: 2330827--2330896 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
2330817 AGGAAGTGCT
* *
2330827 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
2330852 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
2330877 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
2330897 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:2330909 original size:24 final size:24
Alignment explanation
Indices: 2330826--2330921 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
2330816 GAGGAAGTGC
*
2330826 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
2330851 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
2330875 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
2330899 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
2330922 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:2330920 original size:50 final size:50
Alignment explanation
Indices: 2330827--2330921 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
2330817 AGGAAGTGCT
**
2330827 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
2330877 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
2330922 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:2345086 original size:27 final size:27
Alignment explanation
Indices: 2345056--2345199 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
2345046 TACTGAAATG
** *
2345056 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * ** *
2345083 CCCTCGATTTATAGAATTACGGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
2345110 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
2345137 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
2345164 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
2345191 CCCTCGATT
1 CCCTCGATT
2345200 GAGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:2345221 original size:27 final size:26
Alignment explanation
Indices: 2345203--2345354 Score: 132
Period size: 27 Copynumber: 5.7 Consensus size: 26
2345193 CTCGATTGAG
* *
2345203 AAATTACTAAAATACCCCT-ATAGGATA
1 AAATTACCAAAATACCCCTGAT-TG-TA
* *
2345230 TAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCT-GATTGTA
* *
2345257 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCT-GATTGTA
2345284 AAATTACCAAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GA-TTGTA
*
2345311 AAATTACCTAAATACCCCTGATT-TACA
1 AAATTACCAAAATACCCCTGATTGT--A
2345338 AAATTA-CAGAAATACCC
1 AAATTACCA-AAATACCC
2345355 TTGACTTTCT
Statistics
Matches: 107, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.01
26 7 0.07
27 93 0.87
28 5 0.05
29 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGATTGTA
Found at i:2345341 original size:54 final size:54
Alignment explanation
Indices: 2345171--2345420 Score: 163
Period size: 54 Copynumber: 4.6 Consensus size: 54
2345161 TTACCCTCAG
***
2345171 TTTACAAAATTACCATTTTACCCTCGA-TTG-AGAAATTA-CTAAAATACCCCT-A
1 TTTACAAAATTACCAAAATACCCTCGATTTGTA-AAATTACCT-AAATACCCCTGA
** * * * * *
2345223 TAGGATATAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATA-CCCTTA
1 T-TTACAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCTAAATACCCCTGA
**
2345277 GTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCTAAATACCCCTGA
1 -TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCTAAATACCCCTGA
* * *** ** *
2345332 TTTACAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTATAGAAATACCGTTGG
1 TTTACAAAATTACCA-AAATACCCTCGA-TTTGT-AAAATTACCTAAATACCCCTGA
** * *
2345388 TTTACAAAATTACTGAAATACCCTTGGTTTGTA
1 TTTACAAAATTACCAAAATACCCTCGATTTGTA
2345421 GATTTACCAA
Statistics
Matches: 155, Mismatches: 30, Indels: 24
0.74 0.14 0.11
Matches are distributed among these distances:
52 3 0.02
53 21 0.14
54 74 0.48
55 18 0.12
56 39 0.25
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACCTAAATACCCCTGA
Found at i:2345405 original size:27 final size:27
Alignment explanation
Indices: 2345256--2345417 Score: 114
Period size: 27 Copynumber: 5.9 Consensus size: 27
2345246 CCTAGTTTGT
** * **
2345256 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * * **
2345283 AAAATTACCAAAATACCCTCGATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
2345310 AAAATTACCT-AAATACCCCTGATTTAC
1 AAAATTA-CTGAAATACCCTTGGTTTAC
* *
2345337 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
2345364 TAAAAATTA-TAGAAATACCGTTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
2345393 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
2345418 GTAGATTTAC
Statistics
Matches: 112, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
26 1 0.01
27 84 0.75
28 8 0.07
29 19 0.17
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:2345509 original size:27 final size:27
Alignment explanation
Indices: 2345470--2345534 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2345460 ACCGCTAATA
**
2345470 GGTAAAAAAACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA-CCCCTGTAG
* * *
2345497 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
2345524 GGTAAAATGAC
1 GGTAAAATGAC
2345535 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:2346386 original size:25 final size:24
Alignment explanation
Indices: 2346343--2346412 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
2346333 AGGAAGTGCT
* *
2346343 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCT-TTCCCCAGTTTACCA
*
2346368 AAAAGGGCTTTCCCTCAGTTTATCA
1 AAAAGGGCTTTCCC-CAGTTTACCA
2346393 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTT-CCCCAGTT
2346413 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.10
25 33 0.82
26 3 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTCCCCAGTTTACCA
Found at i:2346670 original size:31 final size:31
Alignment explanation
Indices: 2346632--2346739 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
2346622 CGTTGACAGT
*
2346632 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
2346663 AAAGGCTTCGGCCCTGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
** * *
2346694 AAAGGCTTCGGCCGTGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
2346725 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
2346740 TTATATGTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:2349005 original size:27 final size:27
Alignment explanation
Indices: 2348989--2349118 Score: 163
Period size: 27 Copynumber: 4.8 Consensus size: 27
2348979 CGATTCGTAG
* *
2348989 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* * *
2349016 AATTATCGTTTCACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
2349043 AATTACCCTTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
2349070 AATTACCGTTTTACCCTC-AGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
*
2349097 AATTATCATTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
2349119 GTGAAATTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:2349047 original size:54 final size:54
Alignment explanation
Indices: 2348989--2349118 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
2348979 CGATTCGTAG
* * *
2348989 AATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTC-GATTTACAA
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCAG-TTTACAA
* * *
2349043 AATTACCCTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCAGTTTACAA
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCAGTTTACAA
*
2349097 AATTATCATTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
2349119 GTGAAATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 65 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCAGTTTACAA
Done.