Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
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: 3297763
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 14
Found at i:2936094 original size:36 final size:36
Alignment explanation
Indices: 2936019--2936115 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 36
2936009 CGTAGACTTT
* * * *
2936019 TTGAGATAGTTTCTTTTGGAACTAAGTTTTGTCTCCC
1 TTGAGATAGTTTCTCTTGAAAC-AAATGTTGTCTCCC
*
2936056 TTGAGACAGTTTCTCTTGAAACAAATGTTGTCTCCC
1 TTGAGATAGTTTCTCTTGAAACAAATGTTGTCTCCC
*
2936092 TTGAGATAGTTTCTCTCGAAACAA
1 TTGAGATAGTTTCTCTTGAAACAA
2936116 CACAATTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 34 0.64
37 19 0.36
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (36 bp):
TTGAGATAGTTTCTCTTGAAACAAATGTTGTCTCCC
Found at i:2936469 original size:106 final size:106
Alignment explanation
Indices: 2936329--2936899 Score: 867
Period size: 106 Copynumber: 5.4 Consensus size: 106
2936319 TTGTCAACAA
* *
2936329 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
* *
2936394 TGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
2936435 TTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
* *
2936500 CGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
2936541 TTCGGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
* * *
2936606 TGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* *
2936647 TTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCAAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
* *
2936712 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
*
2936753 TTCAGAGCCAATTTCAACTTCACAACGAAGGAT-TTGGACTCAAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
* * *
2936817 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAGT
66 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
* * * * *
2936858 TCCAGAACCAATTTCAGCTTCACGAC-AGAGTATATTGGACTC
1 TTCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
2936900 GGAACAGTAC
Statistics
Matches: 432, Mismatches: 31, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
104 1 0.00
105 97 0.22
106 334 0.77
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAAT
Found at i:2942076 original size:19 final size:19
Alignment explanation
Indices: 2942052--2942088 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2942042 CAAAACTTTT
2942052 TTTTGAATATATTAACCGG
1 TTTTGAATATATTAACCGG
2942071 TTTTGAATATATTAACCG
1 TTTTGAATATATTAACCG
2942089 AATCGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (19 bp):
TTTTGAATATATTAACCGG
Found at i:2942151 original size:12 final size:12
Alignment explanation
Indices: 2942134--2942158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2942124 TGAATTAACC
2942134 TAATTTTTTTAA
1 TAATTTTTTTAA
2942146 TAATTTTTTTAA
1 TAATTTTTTTAA
2942158 T
1 T
2942159 TATATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTTTTTTAA
Found at i:2947440 original size:20 final size:20
Alignment explanation
Indices: 2947415--2947474 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
2947405 ATAAATCTGG
*
2947415 AAAAAAATCAACTTTTTTGA
1 AAAAAAATAAACTTTTTTGA
*
2947435 AAAAAATTAAACTTTTTTGA
1 AAAAAAATAAACTTTTTTGA
*
2947455 AAAAAAATTAAACCTTTTTG
1 AAAAAAA-TAAACTTTTTTG
2947475 TTTTGATCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 24 0.69
21 11 0.31
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAAAAATAAACTTTTTTGA
Found at i:2947451 original size:21 final size:20
Alignment explanation
Indices: 2947414--2947474 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 20
2947404 TATAAATCTG
*
2947414 GAAAAAAA-TCAACTTTTTT
1 GAAAAAAATTAAACTTTTTT
2947433 GAAAAAAATTAAACTTTTTT
1 GAAAAAAATTAAACTTTTTT
*
2947453 GAAAAAAAATTAAACCTTTTT
1 G-AAAAAAATTAAACTTTTTT
2947474 G
1 G
2947475 TTTTGATCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.21
20 11 0.29
21 19 0.50
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (20 bp):
GAAAAAAATTAAACTTTTTT
Found at i:2950213 original size:28 final size:28
Alignment explanation
Indices: 2950173--2950234 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
2950163 TGCGGAACGA
2950173 TGGAGCGAAGAGCATCGACCTCATACGG
1 TGGAGCGAAGAGCATCGACCTCATACGG
2950201 TGGAGCGAAGAGCATCGACCTCATACGG
1 TGGAGCGAAGAGCATCGACCTCATACGG
2950229 TGGAGC
1 TGGAGC
2950235 TTCGAACATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.34, T:0.15
Consensus pattern (28 bp):
TGGAGCGAAGAGCATCGACCTCATACGG
Found at i:2960278 original size:14 final size:14
Alignment explanation
Indices: 2960255--2960297 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
2960245 AATTCGGAAG
2960255 TAGAGTTTAAAATT
1 TAGAGTTTAAAATT
* *
2960269 TAGAGATTAATATT
1 TAGAGTTTAAAATT
*
2960283 TAGATTTTAAAATT
1 TAGAGTTTAAAATT
2960297 T
1 T
2960298 GATTTATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (14 bp):
TAGAGTTTAAAATT
Found at i:2961200 original size:12 final size:12
Alignment explanation
Indices: 2961183--2961207 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2961173 AAAATTTATT
2961183 TTAATTAAAAAA
1 TTAATTAAAAAA
2961195 TTAATTAAAAAA
1 TTAATTAAAAAA
2961207 T
1 T
2961208 CTTCTTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAATTAAAAAA
Found at i:2965494 original size:145 final size:146
Alignment explanation
Indices: 2965158--2965549 Score: 422
Period size: 146 Copynumber: 2.7 Consensus size: 146
2965148 CCATTCTGCG
* * * *
2965158 CTGCCGT-G-CCACCGTCCGATTGTCCTGAAATTTCAGTATGTTGTTCGTATTGACCTCGCACAA
1 CTGCCGTCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTTGTGTTGACATCGCACAA
* * * *
2965221 CTTTTGACAGTTCGGAATGTTGATCGGAGATCCCGATCGCCTGCAAGAGGCCAAAAATCTTTCGG
66 CTTTTCACAGTTCGGAATATTGATCGGAGATCCCGATCGCCTGCAAAAGGCCAAAAATCTTTCAG
*
2965286 ATTTGTTTTCTTCGAT
131 ATTTATTTTCTTCGAT
* ** *
2965302 -TCACCACCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTTGTGTTGACAT-GACAT
1 CT-GCCGTCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTTGTGTTGACATCG-CAC
* * * * * *
2965365 AACTTTTCACTGTTTGGAATATTGATTGGGGATTCCGATCG-CTGGCAAAAGGTCAAAAATCGTT
64 AACTTTTCACAGTTCGGAATATTGATCGGAGATCCCGATCGCCT-GCAAAAGGCCAAAAATC-TT
2965429 T-AG-TTTATTTTCTTCGAT
127 TCAGATTTATTTTCTTCGAT
* * * * * **
2965447 CTGCCGTCGTCCACCGTCCGAACGTCTTGAATTTTCAGTATGTTGTTTGTGCTGGTC-TCGTGCA
1 CTGCCGTCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTTGTG-TTGACATCGCACA
* * *
2965511 ACTTTTGACCGTTCGGAATATTGATCGGAGATTCCGATC
65 ACTTTTCACAGTTCGGAATATTGATCGGAGATCCCGATC
2965550 ACCGACGAAA
Statistics
Matches: 204, Mismatches: 35, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
143 1 0.00
144 2 0.01
145 97 0.48
146 101 0.50
147 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (146 bp):
CTGCCGTCGTCCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTTGTGTTGACATCGCACAA
CTTTTCACAGTTCGGAATATTGATCGGAGATCCCGATCGCCTGCAAAAGGCCAAAAATCTTTCAG
ATTTATTTTCTTCGAT
Found at i:2965695 original size:17 final size:17
Alignment explanation
Indices: 2965673--2965705 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2965663 TTTCGGTTTG
2965673 AAAAAAACCAGTTTTTT
1 AAAAAAACCAGTTTTTT
*
2965690 AAAAAAACCGGTTTTT
1 AAAAAAACCAGTTTTT
2965706 AATCCGGTAA
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:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
AAAAAAACCAGTTTTTT
Found at i:2965759 original size:20 final size:20
Alignment explanation
Indices: 2965734--2965778 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2965724 GTCATCTAAT
2965734 TTTTTAAACCCCAAACCGGA
1 TTTTTAAACCCCAAACCGGA
* *
2965754 TTTTTAAACCCTAGACCGGA
1 TTTTTAAACCCCAAACCGGA
2965774 TTTTT
1 TTTTT
2965779 TTCTGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAAACCGGA
Found at i:2966099 original size:3 final size:3
Alignment explanation
Indices: 2966086--2966152 Score: 82
Period size: 3 Copynumber: 21.7 Consensus size: 3
2966076 TTTAGGTACG
*
2966086 TAA TAA TTAA TAA TAA TAA TAA T-A TAA CTAA TAA TAA TAA TAA TAG
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
*
2966132 TAA TAA TAA TATT TAA TAA TA
1 TAA TAA TAA TA-A TAA TAA TA
2966153 TTTTTTTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 46 0.82
4 8 0.14
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2969763 original size:22 final size:24
Alignment explanation
Indices: 2969738--2969783 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2969728 AATGTAGGAA
*
2969738 GATAAAATT-TC-AAAAATTTAAT
1 GATAAAATTATCTAAAAATATAAT
*
2969760 GATAATATTATCTAAAAATATAAT
1 GATAAAATTATCTAAAAATATAAT
2969784 ATTTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
GATAAAATTATCTAAAAATATAAT
Found at i:2969776 original size:24 final size:23
Alignment explanation
Indices: 2969749--2969800 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2969739 ATAAAATTTC
*
2969749 AAAAATTTAATGATAATATTATCT
1 AAAAATATAAT-ATAATATTATCT
** *
2969773 AAAAATATAATATTTTATTATTT
1 AAAAATATAATATAATATTATCT
2969796 AAAAA
1 AAAAA
2969801 AATTCATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAAATATAATATAATATTATCT
Found at i:2971677 original size:40 final size:40
Alignment explanation
Indices: 2971633--2971835 Score: 134
Period size: 40 Copynumber: 5.0 Consensus size: 40
2971623 CACAAATCAG
*
2971633 TTTTCAGATTCGCAACGCGATTCTGACTATCGCATTGCGA
1 TTTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGA
* * * * *
2971673 TTTTCTGAATTCGCAATGCGAATATAT-A-AATCGCAATACGAA
1 TTTTCAG-ATTCGCAACGCG-AT-TCTGACTATCGCAATGCG-A
* * * *
2971715 TATGT-AAATT-GCAATGCGATTATGACTATCGCAATGCGA
1 T-TTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGA
* *
2971754 TTAT--GACTATCGCAACGCGATTCTGACTATCGCAACGCGA
1 TTTTCAGA-T-TCGCAACGCGATTCTGACTATCGCAATGCGA
* * *
2971794 --TTCTGATTATCGCAACGAGATTCTGACTATCGCAACGCGA
1 TTTTCAGA-T-TCGCAACGCGATTCTGACTATCGCAATGCGA
2971834 TT
1 TT
2971836 CTGACTGTCG
Statistics
Matches: 130, Mismatches: 19, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
37 1 0.01
38 7 0.05
39 6 0.05
40 84 0.65
41 23 0.18
42 5 0.04
43 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
TTTTCAGATTCGCAACGCGATTCTGACTATCGCAATGCGA
Found at i:2971692 original size:21 final size:19
Alignment explanation
Indices: 2971640--2971839 Score: 98
Period size: 20 Copynumber: 10.0 Consensus size: 19
2971630 CAGTTTTCAG
*
2971640 ATTCGCAACGCGATTCTGA
1 ATTCGCAATGCGATTCTGA
* *
2971659 CTATCGCATTGCGATTTTCTGA
1 AT-TCGCAATGCGA--TTCTGA
*
2971681 ATTCGCAATGCGAATATAT-A
1 ATTCGCAATGCG-AT-TCTGA
* * * *
2971701 AATCGCAATACGAATATGTAA
1 ATTCGCAATGCG-AT-TCTGA
*
2971722 ATT-GCAATGCGATTATGA
1 ATTCGCAATGCGATTCTGA
* *
2971740 CTATCGCAATGCGATTATGA
1 AT-TCGCAATGCGATTCTGA
* *
2971760 CTATCGCAACGCGATTCTGA
1 AT-TCGCAATGCGATTCTGA
* *
2971780 CTATCGCAACGCGATTCTGA
1 AT-TCGCAATGCGATTCTGA
* * *
2971800 TTATCGCAACGAGATTCTGA
1 AT-TCGCAATGCGATTCTGA
* *
2971820 CTATCGCAACGCGATTCTGA
1 AT-TCGCAATGCGATTCTGA
2971840 CTGTCGCAAC
Statistics
Matches: 153, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.03
19 4 0.03
20 123 0.80
21 14 0.09
22 8 0.05
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (19 bp):
ATTCGCAATGCGATTCTGA
Found at i:2971759 original size:20 final size:20
Alignment explanation
Indices: 2971725--2971849 Score: 187
Period size: 20 Copynumber: 6.2 Consensus size: 20
2971715 TATGTAAATT
* *
2971725 GCAATGCGATTATGACTATC
1 GCAACGCGATTCTGACTATC
* *
2971745 GCAATGCGATTATGACTATC
1 GCAACGCGATTCTGACTATC
2971765 GCAACGCGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
*
2971785 GCAACGCGATTCTGATTATC
1 GCAACGCGATTCTGACTATC
*
2971805 GCAACGAGATTCTGACTATC
1 GCAACGCGATTCTGACTATC
*
2971825 GCAACGCGATTCTGACTGTC
1 GCAACGCGATTCTGACTATC
2971845 GCAAC
1 GCAAC
2971850 ACTGAATTTC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 98 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
GCAACGCGATTCTGACTATC
Found at i:2972707 original size:24 final size:24
Alignment explanation
Indices: 2972680--2972733 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2972670 GTATTCGAAA
2972680 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
2972704 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
2972728 TTTGAT
1 TTTGAT
2972734 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:2975243 original size:18 final size:18
Alignment explanation
Indices: 2975220--2975254 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2975210 AGAAAAAGGC
*
2975220 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
2975238 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
2975255 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:2975439 original size:20 final size:20
Alignment explanation
Indices: 2975414--2975767 Score: 280
Period size: 20 Copynumber: 18.6 Consensus size: 20
2975404 TTACACATTC
*
2975414 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2975434 ATTTGACTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* * *
2975453 A----A-AATCACAACGTGA
1 ATTTGACTATCGCAACGCGA
*
2975468 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
**
2975488 ATTTGACTATCGCAACGTTA
1 ATTTGACTATCGCAACGCGA
* * *
2975508 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
*
2975528 ATTCGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2975548 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
2975567 A----A-AATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2975582 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2975602 ATTTGACTATCACAA--CGA
1 ATTTGACTATCGCAACGCGA
** *
2975620 A----AAAATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
2975636 ATTTGACTATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2975656 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
*
2975676 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * * *
2975696 ATTTGATTATCACAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
2975716 ATTCGACTATCGCAAAGC-A
1 ATTTGACTATCGCAACGCGA
*
2975735 TATTAGACTATCGCAACGCGA
1 -ATTTGACTATCGCAACGCGA
*
2975756 A-TTGACTTTCGC
1 ATTTGACTATCGC
2975768 GTTGCGATTT
Statistics
Matches: 262, Mismatches: 52, Indels: 41
0.74 0.15 0.12
Matches are distributed among these distances:
14 22 0.08
15 6 0.02
16 4 0.02
18 4 0.02
19 15 0.06
20 210 0.80
21 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2975496 original size:54 final size:54
Alignment explanation
Indices: 2975414--2975671 Score: 318
Period size: 54 Copynumber: 4.7 Consensus size: 54
2975404 TTACACATTC
* * *
2975414 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCACAACGTGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCGCAACGCGA
* * * * *
2975468 ATTTGACTATCGCAACGAGAATTTGACTATCGCAACGTTAATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAAC-TCAA----A-AATCGCAACGCGA
* * *
2975528 ATTCGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATTGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCGCAACGCGA
* ** *
2975582 ATTTGACTATCGCAACGCGAATTTGACTATCACAACGAAAAAATCGCAACACGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCGCAACGCGA
*
2975636 ATTTGACTATTGCAACGCGAATTTGACTATCGCAAC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAAC
2975672 GAGAATTTGA
Statistics
Matches: 174, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
54 124 0.71
55 4 0.02
59 4 0.02
60 42 0.24
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (54 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCGCAACGCGA
Found at i:2975729 original size:168 final size:168
Alignment explanation
Indices: 2975414--2975730 Score: 445
Period size: 168 Copynumber: 1.9 Consensus size: 168
2975404 TTACACATTC
* ** **
2975414 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACTCAAAAATCACAACGTGAATTTGACTATC
1 ATTTGAATATCGCAACGCGAATTTGACTATCACAACGAAAAAATCACAACACGAATTTGACTATC
** * * *
2975479 GCAACGAGAATTTGACTATCGCAACGTTAATTTGATTATCGCAACGGGTATTCGACTATCGCAAC
66 GCAACGAGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGGGAATTCGACTATCACAAC
* *
2975544 GCGAATTTGATTATCGCAACTCAAAAATTGCAACGCGA
131 GCGAATTCGACTATCGCAACTCAAAAATTGCAACGCGA
* * *
2975582 ATTTGACTATCGCAACGCGAATTTGACTATCACAACGAAAAAATCGCAACACGAATTTGACTATT
1 ATTTGAATATCGCAACGCGAATTTGACTATCACAACGAAAAAATCACAACACGAATTTGACTATC
* * * *
2975647 GCAACGCGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGTGAATTTGATTATCACAAC
66 GCAACGAGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGGGAATTCGACTATCACAAC
* *
2975712 GGGTATTCGACTATCGCAA
131 GCGAATTCGACTATCGCAA
2975731 AGCATATTAG
Statistics
Matches: 128, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
168 128 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (168 bp):
ATTTGAATATCGCAACGCGAATTTGACTATCACAACGAAAAAATCACAACACGAATTTGACTATC
GCAACGAGAATTTGACTATCGCAACGAGAATTTGACTATCGCAACGGGAATTCGACTATCACAAC
GCGAATTCGACTATCGCAACTCAAAAATTGCAACGCGA
Found at i:2975786 original size:20 final size:21
Alignment explanation
Indices: 2975757--2975814 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
2975747 GCAACGCGAA
2975757 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
2975777 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
2975797 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
2975815 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:2975952 original size:29 final size:28
Alignment explanation
Indices: 2975918--2975972 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
2975908 ATAAGAATTA
*
2975918 TTTACACATCAATATTAAACAAATCAACT
1 TTTACAAATCAAT-TTAAACAAATCAACT
**
2975947 TTTACAAATCAATTTTTACAAATCAA
1 TTTACAAATCAATTTAAACAAATCAA
2975973 TTAAACAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTACAAATCAATTTAAACAAATCAACT
Found at i:2975973 original size:14 final size:14
Alignment explanation
Indices: 2975913--2975974 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
2975903 CACAAATAAG
*
2975913 AATTATTTACACATC
1 AATT-TTTACAAATC
**
2975928 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
2975943 AACTTTTACAAATC
1 AATTTTTACAAATC
2975957 AATTTTTACAAATC
1 AATTTTTACAAATC
2975971 AATT
1 AATT
2975975 AAACAAACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 12 0.31
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:2977035 original size:12 final size:12
Alignment explanation
Indices: 2977020--2977054 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
2977010 TAATCAAAAT
2977020 GAAATATAAGAA
1 GAAATATAAGAA
2977032 GAAATATAAGAA
1 GAAATATAAGAA
2977044 GAAATATAAGA
1 GAAATATAAGA
2977055 CTTACCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (12 bp):
GAAATATAAGAA
Found at i:2977421 original size:21 final size:21
Alignment explanation
Indices: 2977392--2977478 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
2977382 GAATGTTGGG
* *
2977392 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
* *
2977413 AGTGGCCTCTTGAAC-AGTGAG
1 AGGGGCCTCTTGAACGA-TGAC
* ** *
2977434 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
*
2977455 AGGGGCCTCTTAAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
2977476 AGG
1 AGG
2977479 TGAGTCAGAC
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
20 1 0.02
21 48 0.96
22 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:2978053 original size:20 final size:20
Alignment explanation
Indices: 2978028--2978073 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2978018 GCGATTCTTT
2978028 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
2978048 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
2978068 CGTTGC
1 CGTTGC
2978074 AAAAGTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2978246 original size:18 final size:18
Alignment explanation
Indices: 2978223--2978272 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
2978213 TTTACTAAGC
2978223 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
2978241 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
2978259 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
2978273 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:2980087 original size:19 final size:20
Alignment explanation
Indices: 2979993--2980106 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
2979983 AATAGTTTCT
* *
2979993 GAAACTTAAAATCGCAACAC
1 GAAACTGAAAATCGCAACGC
* *
2980013 GAAAATGAAAATCGCAACAC
1 GAAACTGAAAATCGCAACGC
* ** *
2980033 GAAAATGACTATCGCAACGT
1 GAAACTGAAAATCGCAACGC
** **
2980053 GAATTTGACTATCGCAACGC
1 GAAACTGAAAATCGCAACGC
2980073 GAAACT-AAAATCGCAACGC
1 GAAACTGAAAATCGCAACGC
2980092 GAAACT-AAAATCGCA
1 GAAACTGAAAATCGCA
2980107 TTGCGATTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 26 0.32
20 55 0.68
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.16
Consensus pattern (20 bp):
GAAACTGAAAATCGCAACGC
Found at i:2980520 original size:22 final size:22
Alignment explanation
Indices: 2980493--2980603 Score: 152
Period size: 22 Copynumber: 4.9 Consensus size: 22
2980483 GATAGATGGA
*
2980493 TTTCGTAGGAGATGGGGACTGG
1 TTTCGTCGGAGATGGGGACTGG
*
2980515 TTTCGTCGGAGATGGGGATTGG
1 TTTCGTCGGAGATGGGGACTGG
2980537 TTTCGTCGGAGATGGAGATAGA-TGG
1 TTTCGTCGGAGATGG-G---GACTGG
2980562 ATTTCGTCGGAGATGGGGACTGG
1 -TTTCGTCGGAGATGGGGACTGG
2980585 TTTCGTCGGAGATGGGGAC
1 TTTCGTCGGAGATGGGGAC
2980604 GGATGTCGCT
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
22 56 0.69
23 4 0.05
25 4 0.05
26 17 0.21
ACGTcount: A:0.18, C:0.11, G:0.43, T:0.28
Consensus pattern (22 bp):
TTTCGTCGGAGATGGGGACTGG
Found at i:2980632 original size:70 final size:69
Alignment explanation
Indices: 2980474--2980611 Score: 206
Period size: 70 Copynumber: 2.0 Consensus size: 69
2980464 GGTGGCTCTG
* *
2980474 AGAGATGGAGATAGATGGATTTCGTAGGAGATGGGGACTGGTTTCGTCGGAGATGGGGATTGGTT
1 AGAGATGGAGA-AGATGGATTTCGTAGGAGATGGGGACTGGTTTCGTCGGAGATGGGGATCGGTG
2980539 TCGTC
65 TCGTC
* *
2980544 GGAGATGGAGATAGATGGATTTCGTCGGAGATGGGGACTGGTTTCGTCGGAGATGGGGA-CGGAT
1 AGAGATGGAGA-AGATGGATTTCGTAGGAGATGGGGACTGGTTTCGTCGGAGATGGGGATCGG-T
2980608 GTCG
64 GTCG
2980612 CTTTAGAGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 2 0.03
70 61 0.97
ACGTcount: A:0.21, C:0.09, G:0.43, T:0.26
Consensus pattern (69 bp):
AGAGATGGAGAAGATGGATTTCGTAGGAGATGGGGACTGGTTTCGTCGGAGATGGGGATCGGTGT
CGTC
Found at i:2980813 original size:20 final size:20
Alignment explanation
Indices: 2980779--2980872 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
2980769 ACGCTTTGAA
* *
2980779 AATCACATTGCGATAGTCAG
1 AATCGCATTGTGATAGTCAG
*
2980799 CATCGCATTGTGATAGTCAG
1 AATCGCATTGTGATAGTCAG
*
2980819 AATCGCGTTGTGATAGTCAG
1 AATCGCATTGTGATAGTCAG
* * * *
2980839 AATCTCGTTGCGATAGTCAT
1 AATCGCATTGTGATAGTCAG
2980859 AATCGCATTGTGAT
1 AATCGCATTGTGAT
2980873 TTACATATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (20 bp):
AATCGCATTGTGATAGTCAG
Found at i:2980879 original size:20 final size:20
Alignment explanation
Indices: 2980856--2980911 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2980846 TTGCGATAGT
*
2980856 CATAATCGCATTGTGATTTA
1 CATATTCGCATTGTGATTTA
*
2980876 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGTGATTTA
2980896 CATATTCGCATTGTGA
1 CATATTCGCATTGTGA
2980912 ATTCGGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
CATATTCGCATTGTGATTTA
Found at i:2980890 original size:40 final size:40
Alignment explanation
Indices: 2980779--2980911 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 40
2980769 ACGCTTTGAA
* * * * *
2980779 AATCACATTGCGATAGTCAGCATCGCATTGTGATAGTCAG
1 AATCGCATTGTGATAGTCAGAATCGCATTGCGATAGTCAT
* * *
2980819 AATCGCGTTGTGATAGTCAGAATCTCGTTGCGATAGTCAT
1 AATCGCATTGTGATAGTCAGAATCGCATTGCGATAGTCAT
* * * *
2980859 AATCGCATTGTGAT-TTACATATTCGCATTGCGAT-TTACAT
1 AATCGCATTGTGATAGT-CAGAATCGCATTGCGATAGT-CAT
*
2980899 ATTCGCATTGTGA
1 AATCGCATTGTGA
2980912 ATTCGGAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 2 0.03
40 73 0.97
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (40 bp):
AATCGCATTGTGATAGTCAGAATCGCATTGCGATAGTCAT
Found at i:2981601 original size:14 final size:15
Alignment explanation
Indices: 2981554--2981605 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
2981544 TTAAGGGATT
2981554 TGAATTACTGGAAAA
1 TGAATTACTGGAAAA
**
2981569 TGAATTACTGGAATT
1 TGAATTACTGGAAAA
*
2981584 TGAATT-CTGGAAAG
1 TGAATTACTGGAAAA
2981598 TGAATTAC
1 TGAATTAC
2981606 ATTTCTGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (15 bp):
TGAATTACTGGAAAA
Found at i:2987898 original size:53 final size:54
Alignment explanation
Indices: 2987795--2987900 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 54
2987785 ATAAATTCAC
* * *
2987795 ATATAATTAGAAAAGATAAAATATGATTAACAAGGGTTAGTTTACGTGGTAAAT
1 ATATAATTAAAAAAGATAAAATATGATTAACAAGAGTTAGTTTAAGTGGTAAAT
* *
2987849 ATATAATTAAAAAAGATAAAATGTG-TTAACATGAGTTAGTTTAAGTGGTAAA
1 ATATAATTAAAAAAGATAAAATATGATTAACAAGAGTTAGTTTAAGTGGTAAA
2987901 CATCTTGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 24 0.51
54 23 0.49
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (54 bp):
ATATAATTAAAAAAGATAAAATATGATTAACAAGAGTTAGTTTAAGTGGTAAAT
Found at i:2988119 original size:16 final size:17
Alignment explanation
Indices: 2988081--2988121 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2988071 ATTATTGTAA
* *
2988081 AATTATTTTATATTTTT
1 AATTATTTAATATTATT
2988098 AA-TATTTAATA-TATT
1 AATTATTTAATATTATT
2988113 AATTATTTA
1 AATTATTTA
2988122 TAGTTTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTATTTAATATTATT
Found at i:2994440 original size:3 final size:3
Alignment explanation
Indices: 2994432--2994495 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
2994422 TCATCTGTGA
2994432 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
2994480 AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG A
2994496 AGGAAGGAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:2997342 original size:18 final size:18
Alignment explanation
Indices: 2997316--2997351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2997306 AACATTGTAT
*
2997316 TCCAATGCTTCTGGCAAC
1 TCCAATGCTCCTGGCAAC
*
2997334 TCCAGTGCTCCTGGCAAC
1 TCCAATGCTCCTGGCAAC
2997352 CGTCGAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.25
Consensus pattern (18 bp):
TCCAATGCTCCTGGCAAC
Found at i:3002121 original size:21 final size:20
Alignment explanation
Indices: 3002088--3002434 Score: 219
Period size: 21 Copynumber: 17.4 Consensus size: 20
3002078 CAACGCGATT
3002088 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTC-CG
** *
3002109 TTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCCAAGTTCCG
** *
3002128 TTGCGATTTTCCAA-AT---
1 TTGCGATAGTCCAAGTTCCG
* * * *
3002144 TTACGTTAGTCTAAATT-CG
1 TTGCGATAGTCCAAGTTCCG
3002163 TTGCGATAGTCCAAGTTCACG
1 TTGCGATAGTCCAAGTTC-CG
*
3002184 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTC-CG
** *
3002205 TTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCCAAGTTCCG
*
3002224 TTGCGATAGTCCAAGTTCATG
1 TTGCGATAGTCCAAGTTC-CG
* ** * *
3002245 TTACGATTTTTCAAATT-CG
1 TTGCGATAGTCCAAGTTCCG
* * * *
3002264 TTACGATAATCGAAGTTCGTG
1 TTGCGATAGTCCAAGTTC-CG
* *
3002285 TTGCGATAGTCGAAGTTCGCA
1 TTGCGATAGTCCAAGTTC-CG
** *
3002306 TTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCCAAGTTCCG
3002325 TTGCGATAGTCCAAGTTCACG
1 TTGCGATAGTCCAAGTTC-CG
*
3002346 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCCAAGTTC-CG
*
3002367 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTC-CG
** *
3002388 TTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCCAAGTTCCG
*
3002407 TTGCGATAGTCTAAGTTCGCG
1 TTGCGATAGTCCAAGTTC-CG
3002428 TTGCGAT
1 TTGCGAT
3002435 TTTCCAAAAT
Statistics
Matches: 255, Mismatches: 58, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
16 9 0.04
17 1 0.00
18 1 0.00
19 88 0.35
21 156 0.61
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCCAAGTTCCG
Found at i:3002226 original size:40 final size:40
Alignment explanation
Indices: 3002161--3002377 Score: 177
Period size: 40 Copynumber: 5.3 Consensus size: 40
3002151 AGTCTAAATT
* *
3002161 CGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAATT--CGTTGCGATAGTCGAAGTTCA
** *
3002203 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAATTCGTTGCGATAGTCGAAGTTCA
* * ** * * * *
3002243 TGTTACGATTTTTCAAATTCGTTACGATAATCGAAGTTCG
1 CGTTGCGATAGTCCAAATTCGTTGCGATAGTCGAAGTTCA
* * * ** * *
3002283 TGTTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCCAAATTCG--TTGCGATAGTCGAAGTTCA
*
3002323 CGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCA
1 CGTTGCGATAGTCCAAATT--CGTTGCGATAGTCGAAGTTCA
3002365 CGTTGCGATAGTC
1 CGTTGCGATAGTC
3002378 GAAGTTCGCG
Statistics
Matches: 140, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
40 97 0.69
42 43 0.31
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (40 bp):
CGTTGCGATAGTCCAAATTCGTTGCGATAGTCGAAGTTCA
Found at i:3002227 original size:61 final size:59
Alignment explanation
Indices: 3002156--3002434 Score: 263
Period size: 61 Copynumber: 4.6 Consensus size: 59
3002146 ACGTTAGTCT
* *
3002156 AAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCC
1 AAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAATT--CGTTGCGATATTCC
* * ** * * *
3002217 AAATTCGTTGCGATAGTCCAAGTTCATGTTACGATTTTTC-AAATTCGTTACGATAATCG
1 AAATTCGTTGCGATAGTCCAAGTTCACGTTGCGA-TAGTCGAAATTCGTTGCGATATTCC
* * * * ** * *
3002276 AAGTTCGTGTTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCC
1 AAATTC--GTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAATTCGTTGCGATATTCC
* * * *
3002337 AAGTTCACGTTGCGATAGTCGAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCC
1 AAATT--CGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAATT--CGTTGCGATATTCC
* *
3002400 AAATTCGTTGCGATAGTCTAAGTTCGCGTTGCGAT
1 AAATTCGTTGCGATAGTCCAAGTTCACGTTGCGAT
3002435 TTTCCAAAAT
Statistics
Matches: 181, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
59 15 0.08
60 5 0.03
61 141 0.78
62 3 0.02
63 17 0.09
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (59 bp):
AAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAATTCGTTGCGATATTCC
Found at i:3002298 original size:101 final size:102
Alignment explanation
Indices: 3002088--3002394 Score: 369
Period size: 101 Copynumber: 3.1 Consensus size: 102
3002078 CAACGCGATT
* **
3002088 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATTTTCCAA----AT-TTAC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCATGTTAC
* *
3002148 G-TTAGTCTAAATTCGTTGCGATAGTCCAAGTTCACG
66 GATTAGTCTAAATTCGTTACGATAATCCAAGTTCACG
3002184 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCATGTTAC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCATGTTAC
** * **
3002249 GATTTTTC-AAATTCGTTACGATAATCGAAGTTCGTG
66 GATTAGTCTAAATTCGTTACGATAATCCAAGTTCACG
* * *
3002285 TTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCATGTTAC
* * * * * *
3002350 GA-TAGTCGAAGTTCACGTTGCGATAGTCGAAGTTCGCG
66 GATTAGTCTAAATT--CGTTACGATAATCCAAGTTCACG
3002388 TTGCGAT
1 TTGCGAT
3002395 TTTCCAAATT
Statistics
Matches: 183, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
96 51 0.28
100 5 0.03
101 96 0.52
102 4 0.02
103 27 0.15
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (102 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCATGTTAC
GATTAGTCTAAATTCGTTACGATAATCCAAGTTCACG
Found at i:3002423 original size:40 final size:40
Alignment explanation
Indices: 3002284--3002442 Score: 228
Period size: 40 Copynumber: 3.9 Consensus size: 40
3002274 CGAAGTTCGT
*
3002284 GTTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
* * ** * *
3002324 GTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCAC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT--C
3002366 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
*
3002406 GTTGCGATAGTCTAAGTTCGCGTTGCGATTTTCCAAA
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAA
3002443 ATCGCAACGA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 69 0.67
42 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
GTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTC
Found at i:3002447 original size:21 final size:21
Alignment explanation
Indices: 3002383--3002447 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
3002373 TAGTCGAAGT
3002383 TCGCGTTGCGATTTTCC-AAA
1 TCGCGTTGCGATTTTCCAAAA
* ** * **
3002403 T-TCGTTGCGATAGTCTAAGT
1 TCGCGTTGCGATTTTCCAAAA
3002423 TCGCGTTGCGATTTTCCAAAA
1 TCGCGTTGCGATTTTCCAAAA
3002444 TCGC
1 TCGC
3002448 AACGACTGGT
Statistics
Matches: 31, Mismatches: 12, Indels: 3
0.67 0.26 0.07
Matches are distributed among these distances:
19 11 0.35
20 3 0.10
21 17 0.55
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAA
Found at i:3002542 original size:6 final size:6
Alignment explanation
Indices: 3002531--3002556 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3002521 GACACGTATT
3002531 ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG AC
3002557 GAGACGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3002881 original size:19 final size:20
Alignment explanation
Indices: 3002856--3002946 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
3002846 CTTATTTTGG
3002856 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
3002876 -TTTTTCACTATCGCAACAAC
1 ATTTTTCACTATCGCAAC-AC
*
3002896 ACGTTTTTCAAACTCTCGCAACAC
1 A--TTTTTC--ACTATCGCAACAC
*
3002920 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
3002939 ATTTTTCA
1 ATTTTTCA
3002947 AAATCGCATT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 30 0.50
20 7 0.12
21 4 0.07
23 6 0.10
24 3 0.05
25 10 0.17
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:3002918 original size:44 final size:41
Alignment explanation
Indices: 3002867--3002948 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
3002857 TTTTTCACTA
* *
3002867 TCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAACTC
1 TCGCAACACATTTTAACTATCGCAAC-ACA--TTTTTCAAACTC
3002911 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
3002949 ATCGCATTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 3 0.08
44 24 0.67
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Found at i:3004054 original size:7 final size:7
Alignment explanation
Indices: 3004044--3004111 Score: 55
Period size: 7 Copynumber: 8.6 Consensus size: 7
3004034 TTAAATAAAT
3004044 AAAATAA
1 AAAATAA
3004051 AAAATAA
1 AAAATAA
3004058 AAAATTATA
1 AAAA-TA-A
3004067 ATTATAATAA
1 A--A-AATAA
3004077 AAAATAA
1 AAAATAA
3004084 AAAATCAA
1 AAAAT-AA
3004092 AGGAAATAA
1 A--AAATAA
*
3004101 AAGATAA
1 AAAATAA
3004108 AAAA
1 AAAA
3004112 AGATTAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
7 29 0.57
8 6 0.12
9 5 0.10
10 6 0.12
11 3 0.06
12 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (7 bp):
AAAATAA
Found at i:3004173 original size:24 final size:24
Alignment explanation
Indices: 3004139--3004210 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 24
3004129 GGGGAAATGT
3004139 TAAAT-AAAGTAAAATAATAAAAA
1 TAAATAAAAGTAAAATAATAAAAA
*
3004162 T-AATAAGAAGTAAAAAAATAAAAA
1 TAAATAA-AAGTAAAATAATAAAAA
*
3004186 TAAATAAATAATAAAATAATAAAAA
1 TAAATAAA-AGTAAAATAATAAAAA
3004211 CACTAAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.07
23 2 0.05
24 18 0.43
25 19 0.45
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (24 bp):
TAAATAAAAGTAAAATAATAAAAA
Found at i:3004229 original size:12 final size:12
Alignment explanation
Indices: 3004175--3004236 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
3004165 TAAGAAGTAA
*
3004175 AAAAATAAAAAT
1 AAAACTAAAAAT
3004187 -AAA-TAAATAAT
1 AAAACTAAA-AAT
3004198 AAAA-TAATAAA-
1 AAAACTAA-AAAT
* *
3004209 AACACTAAAACT
1 AAAACTAAAAAT
3004221 AAAACTAAAAAT
1 AAAACTAAAAAT
3004233 AAAA
1 AAAA
3004237 AATGTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 4 0.10
11 11 0.27
12 25 0.61
13 1 0.02
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAACTAAAAAT
Found at i:3005311 original size:2 final size:2
Alignment explanation
Indices: 3005304--3005344 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3005294 ATTATCTATG
3005304 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3005345 CATTCACTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3006320 original size:20 final size:22
Alignment explanation
Indices: 3006295--3006351 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
3006285 AATAATGTAG
3006295 GTATCGATGCACTCT-AC-AGT
1 GTATCGATGCACTCTAACGAGT
*
3006315 GTATCGATGCATCCTTTAACGAGT
1 GTATCGATGCA--CTCTAACGAGT
3006339 GTATCGATGCACT
1 GTATCGATGCACT
3006352 ACTTATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.34
22 5 0.16
23 2 0.06
24 14 0.44
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (22 bp):
GTATCGATGCACTCTAACGAGT
Found at i:3009973 original size:18 final size:18
Alignment explanation
Indices: 3009947--3010035 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
3009937 GCACTATATT
* *
3009947 TGTCTCGAAAGACCACTA
1 TGTCCCGAAGGACCACTA
3009965 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
3009983 TGCCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
3010001 TATCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
*
3010019 TGCCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
3010036 CATTAAGAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:3009998 original size:36 final size:36
Alignment explanation
Indices: 3009952--3010035 Score: 141
Period size: 36 Copynumber: 2.3 Consensus size: 36
3009942 ATATTTGTCT
* *
3009952 CGAAAGACCACTATGTCCCGAAGGACCACTATGCCC
1 CGAAGGACCACTATATCCCGAAGGACCACTATGCCC
*
3009988 CGAAGGACCACTATATCCCGAATGACCACTATGCCC
1 CGAAGGACCACTATATCCCGAAGGACCACTATGCCC
3010024 CGAAGGACCACT
1 CGAAGGACCACT
3010036 CATTAAGAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.31, C:0.36, G:0.19, T:0.14
Consensus pattern (36 bp):
CGAAGGACCACTATATCCCGAAGGACCACTATGCCC
Found at i:3010315 original size:6 final size:6
Alignment explanation
Indices: 3010304--3010330 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3010294 CAATCATATC
3010304 ACTTAT ACTTAT ACTTAT ACTTAT ACT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACT
3010331 CTCATAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (6 bp):
ACTTAT
Found at i:3010925 original size:64 final size:63
Alignment explanation
Indices: 3010816--3010936 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 63
3010806 AATGCATCCT
*
3010816 TTAACGAGTGCATCGATGCACTACTTATGCATCAGTACATAAATTGCATTCGATGTTTTCATC
1 TTAACGAGTGCATCGATGCACTACTTATGCATCAGCACATAAATTGCATTCGATGTTTTCATC
* *
3010879 TTAAGGAGATGCATCGATGCACTCCTTATGCATCGATGCAC-T-AATTGCATTCGATGTT
1 TTAACGAG-TGCATCGATGCACTACTTATGCATC-A-GCACATAAATTGCATTCGATGTT
3010937 CATTTATTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
63 7 0.13
64 40 0.77
65 2 0.04
66 3 0.06
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (63 bp):
TTAACGAGTGCATCGATGCACTACTTATGCATCAGCACATAAATTGCATTCGATGTTTTCATC
Found at i:3015105 original size:72 final size:72
Alignment explanation
Indices: 3014984--3015127 Score: 245
Period size: 72 Copynumber: 2.0 Consensus size: 72
3014974 GACTGTGAGG
* *
3014984 ATGGTCCTACCATTGAAGAGGGAGGCAATAGTGAAATTCCAATAGGATTGAGTATCTCATCA-AG
1 ATGGTCCTACCATTGAAGAGGGAGGCAATAGTGAAACTCCAATACGATTGAGTATCTCATCATAG
3015048 ATAAAGA
66 ATAAAGA
*
3015055 ATGGTCCTACCATTGAAAGAGGGAGGCAATAGTGAAACTCCAATACGATTGAGTATTTCATCATA
1 ATGGTCCTACCATTG-AAGAGGGAGGCAATAGTGAAACTCCAATACGATTGAGTATCTCATCATA
3015120 GATAAAGA
65 GATAAAGA
3015128 GTGACATCGA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 15 0.22
72 44 0.65
73 9 0.13
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (72 bp):
ATGGTCCTACCATTGAAGAGGGAGGCAATAGTGAAACTCCAATACGATTGAGTATCTCATCATAG
ATAAAGA
Found at i:3019470 original size:157 final size:157
Alignment explanation
Indices: 3019162--3019456 Score: 509
Period size: 157 Copynumber: 1.9 Consensus size: 157
3019152 AATCTTGAAC
* *
3019162 GACTATCATATCTTAGTCAACACATTAATGTCCATTTCAAACGACCGTCAATTTTTTAATGAAAA
1 GACTATCATATCTTAGTCAACACATTAATGTCCAGTTCAAACGACCGTCAAATTTTTAATGAAAA
* *
3019227 ATAATGAGTTTGGAATATATGAATAATCGGTTGACCATTTTATAACTTTTAATAGTTGATAGACT
66 ATAATGAGTTTGGAACATATGAATAATCGGCTGACCATTTTATAACTTTTAATAGTTGATAGACT
3019292 CGACAAAGCAACAACCTATAGTCAGAA
131 CGACAAAGCAACAACCTATAGTCAGAA
* ** *
3019319 GACTATCATATCTTAGTGAACATGTTAATGTCCAGTTCAAATGACCGTCAAATTTTTAATGAAAA
1 GACTATCATATCTTAGTCAACACATTAATGTCCAGTTCAAACGACCGTCAAATTTTTAATGAAAA
*
3019384 ATAATGAGTTTGGAACATATGAATAATCGGCTGACCATTTTGTAACTTTTAATAGTTGATAGACT
66 ATAATGAGTTTGGAACATATGAATAATCGGCTGACCATTTTATAACTTTTAATAGTTGATAGACT
3019449 CGACAAAG
131 CGACAAAG
3019457 TAACTGTCTA
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 129 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (157 bp):
GACTATCATATCTTAGTCAACACATTAATGTCCAGTTCAAACGACCGTCAAATTTTTAATGAAAA
ATAATGAGTTTGGAACATATGAATAATCGGCTGACCATTTTATAACTTTTAATAGTTGATAGACT
CGACAAAGCAACAACCTATAGTCAGAA
Found at i:3020945 original size:20 final size:20
Alignment explanation
Indices: 3020920--3020958 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3020910 ACATGCTCTT
3020920 CTTCTTCTTCAACCCAACCC
1 CTTCTTCTTCAACCCAACCC
*
3020940 CTTCTTTTTCAACCCAACC
1 CTTCTTCTTCAACCCAACC
3020959 TGAATTGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.46, G:0.00, T:0.33
Consensus pattern (20 bp):
CTTCTTCTTCAACCCAACCC
Found at i:3023474 original size:85 final size:84
Alignment explanation
Indices: 3023329--3023704 Score: 330
Period size: 84 Copynumber: 4.5 Consensus size: 84
3023319 TACCATGCGG
* * * * * * * * * * *
3023329 TTGATATGCCTATGAGCTAAATGAAATTGAACTCGAATGTCTTTGATAACAGATAGCCCTTCTCG
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTAG
* * *
3023394 CCTTGAGCTATACTGTAAA
66 CCTTAAGCTATGCTGCAAA
*
3023413 TTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAAATAACCCTTCTA
1 -TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTA
* *
3023478 GCCTTGAGTTATGCTGC-AA
65 GCCTTAAGCTATGCTGCAAA
* * * * * * *
3023497 TTGATATGCCTTTGAGCTTAGTGTAGTCAAACTCAAAGGTATTTTGTCGACAGATAGCCCTTAT-
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTA-TTTGTTGACAGATAACCCTTCTA
**
3023561 TTCTTAAAGCTATGCTGCAAA
65 GCCTT-AAGCTATGCTGCAAA
* * * * *
3023582 -TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTCTGA-AGATAACCCTTCT
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-ATTTGT-TGACAGATAACCCTTCT
*
3023645 AGCCTTAAGTTATGCTGCAAA
64 AGCCTTAAGCTATGCTGCAAA
* * * ** *
3023666 -TGATGTACCTTGGAGCTGAACGTAATTGAACTCGAAGGT
1 TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
3023705 CTTGGTTGGA
Statistics
Matches: 241, Mismatches: 44, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
83 40 0.17
84 128 0.53
85 73 0.30
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (84 bp):
TTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTAG
CCTTAAGCTATGCTGCAAA
Found at i:3023849 original size:145 final size:147
Alignment explanation
Indices: 3023581--3023852 Score: 350
Period size: 145 Copynumber: 1.9 Consensus size: 147
3023571 TATGCTGCAA
* * *
3023581 ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTCTGAAGATAACCCTTCTA
1 ATGATGTGCCTTGGAGCTGAACGCAATCGAACTCGAAGGTCTTTTG--TGAAGATAACCCTTCTA
* * * *
3023646 GCCTTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAACGTAATTGAACTCGAAGGTCTTGGT
64 GCCTTAAGTTATACTACAAATGATGTACCTTGGAGCTGAACGTAATCGAACTCAAAGGTCTTGGT
3023711 TGGAAAATAACCTTTATTG
129 TGGAAAATAACCTTTATTG
* * * ** *
3023730 ATGATGTGCCTTGGAGCTTAATGCAATCGAACTCGAAGGTC-TTTG-GCAGATAGTCCTTCTTGC
1 ATGATGTGCCTTGGAGCTGAACGCAATCGAACTCGAAGGTCTTTTGTGAAGATAACCCTTCTAGC
* ** * *
3023793 CTTGAGTTATACTACAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTT
66 CTTAAGTTATACTACAAATGATGTACCTTGGAGCTGAACGTAATCGAACTCAAAGGTCTT
3023853 TTATTGGCAG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
145 65 0.62
148 4 0.04
149 36 0.34
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (147 bp):
ATGATGTGCCTTGGAGCTGAACGCAATCGAACTCGAAGGTCTTTTGTGAAGATAACCCTTCTAGC
CTTAAGTTATACTACAAATGATGTACCTTGGAGCTGAACGTAATCGAACTCAAAGGTCTTGGTTG
GAAAATAACCTTTATTG
Found at i:3023895 original size:84 final size:83
Alignment explanation
Indices: 3023730--3024290 Score: 650
Period size: 84 Copynumber: 6.8 Consensus size: 83
3023720 ACCTTTATTG
* * * * **
3023730 ATGATGTGCCTTGGAGCTTAATGCAATCGAACTCGAAGGTC---TTTGGCAGATAGTCCTTCTTG
1 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGATAACCCTTCTTG
* *
3023792 CCTTGAGTTATACTACAA
66 CCTTGAGTTATGCTGCAA
* * * *
3023810 ATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTTTATTGGCAGATAACCCTTCTA
1 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT-TTGGCAGATAACCCTTCTT
3023875 GCCTTGAGTTATGCTGCAA
65 GCCTTGAGTTATGCTGCAA
* * * * * * *
3023894 ATGATATGCCTTAGAGCTGAGTGTAATCGAACCCGAAGGTCTTTTGTTGACAAATAGCCTTTCTT
1 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT-TTGGCAGATAACCCTTCTT
* *
3023959 GCCTTGAGCTATGTTGCAA
65 GCCTTGAGTTATGCTGCAA
* * * * * *
3023978 ATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGACAGATAACCCTTCTAG
1 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGATAACCCTTCTTG
* *
3024043 CCTTGAGTTATGTTGTAA
66 CCTTGAGTTATGCTGCAA
* * * *
3024061 ATGATGTGTCTTTGAGCTGAATGTAATCGAGCTCGAAGGTC---TTTGGCAGATAACCCTTATTG
1 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGATAACCCTTCTTG
3024123 CCTTGAGTTATGCTGCAA
66 CCTTGAGTTATGCTGCAA
* * * *
3024141 ATGATGGTGCCTTTAAGCTGGGTGTAATTGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
1 ATGAT-GTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-TTTGGCAGATAACCCTTCT
* * *
3024206 CGACTTAAGTTATGCTGCAA
64 TGCCTTGAGTTATGCTGCAA
*
3024226 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGAT-ACTCCTTCT
1 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT-TTGGCAGATAAC-CCTTCT
3024290 T
64 T
3024291 TGAGTTAGAT
Statistics
Matches: 407, Mismatches: 63, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
80 75 0.18
81 30 0.07
83 69 0.17
84 194 0.48
85 39 0.10
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (83 bp):
ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGATAACCCTTCTTG
CCTTGAGTTATGCTGCAA
Found at i:3024227 original size:248 final size:249
Alignment explanation
Indices: 3023730--3024289 Score: 702
Period size: 248 Copynumber: 2.3 Consensus size: 249
3023720 ACCTTTATTG
* * ** * * ** *
3023730 ATGATGTGCCTTGGAGCTTAATGCAATCGAACTCGAAGGTC---TTTGGCAGATAGTCCTTCTTG
1 ATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTTTGACAGATAACCCTTCTAG
3023792 CCTTGAGTTATACTACAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTTTAT
66 CCTTGAGTTATACTACAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTC--TTAT
*
3023857 TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGTAATC
129 TGGCAGATAACCCTTATAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGTAATC
* * * * * * *
3023922 GAACCCGAAGGTCTTTTGTTGACAAATAGCCTTTCTTGCCTTGAGCTATGTTGCAA
194 GAACCCGAAGGTCTTTGGTTGACAAATAACCCTTCTCGACTTAAGCTATGCTGCAA
*
3023978 ATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGACAGATAACCCTTCTAG
1 ATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTTTGACAGATAACCCTTCTAG
** ** * *
3024043 CCTTGAGTTATGTTGTAAATGATGTGTCTTTGAGCTGAATGTAATCGAGCTCGAAGGTC-T-TTG
66 CCTTGAGTTATACTACAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTATTG
* * * *
3024106 GCAGATAACCCTTATTGCCTTGAGTTATGCTGCAAATGATGGTGCCTTTA-AGCTGGGTGTAATT
131 GCAGATAACCCTTATAGCCTTGAGTTATGCTGCAAATGAT-ATGCC-TTAGAGCTGAGTGTAATC
* * * *
3024170 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
194 GAACCCGAAGGTCTTTGGTTGACAAATAACCCTTCTCGACTTAAGCTATGCTGCAA
* * *
3024226 ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGAT-ACTCCTTCT
1 ATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTT-TTGACAGATAAC-CCTTCT
3024290 TTGAGTTAGA
Statistics
Matches: 269, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
247 41 0.15
248 140 0.52
249 18 0.07
251 70 0.26
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (249 bp):
ATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTTTGACAGATAACCCTTCTAG
CCTTGAGTTATACTACAAATGATGTGTCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTATTG
GCAGATAACCCTTATAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGTAATCGA
ACCCGAAGGTCTTTGGTTGACAAATAACCCTTCTCGACTTAAGCTATGCTGCAA
Found at i:3024836 original size:43 final size:43
Alignment explanation
Indices: 3024742--3024837 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
3024732 TTCGTTGTGA
* ** * *
3024742 AGTTGAAACCGTGGATGTGTGGGCATGATATCCTCCGTCGTGG
1 AGTTGAAATCGTGGATCCGTGGGCACGATATCCTCCATCGTGG
*
3024785 AGTTGAAATCGTGGATCCGTGGGTACGATATCCTCCATCGTGG
1 AGTTGAAATCGTGGATCCGTGGGCACGATATCCTCCATCGTGG
3024828 AGTTGAAATC
1 AGTTGAAATC
3024838 ACGGATGGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
AGTTGAAATCGTGGATCCGTGGGCACGATATCCTCCATCGTGG
Found at i:3025120 original size:64 final size:64
Alignment explanation
Indices: 3025047--3025166 Score: 197
Period size: 64 Copynumber: 1.9 Consensus size: 64
3025037 ATTGTGAGTT
* *
3025047 CAATATCCTTCGTTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAA-TTGTTTGTTAAGTA
1 CAATATCCTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAA-TGGAAAAGTTGTTTGTTAAGTA
*
3025111 CAATATCCTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAGTTGTTT
1 CAATATCCTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAATGGAAAAGTTGTTT
3025167 ATTGACAGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
63 6 0.12
64 46 0.88
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (64 bp):
CAATATCCTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAATGGAAAAGTTGTTTGTTAAGTA
Found at i:3025464 original size:32 final size:32
Alignment explanation
Indices: 3025428--3025510 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
3025418 TTGCATCAAG
*
3025428 ATGTTAAATC-CCTAAATATGCCCCAATATTCA
1 ATGTTAAATCTCC-AAAGATGCCCCAATATTCA
* **
3025460 ATGTTAAATCTCCAAAGATGCCTCAATATTTG
1 ATGTTAAATCTCCAAAGATGCCCCAATATTCA
* *
3025492 ATGTTGAATCTTCAAAGAT
1 ATGTTAAATCTCCAAAGAT
3025511 TCCCTCTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
32 42 0.95
33 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (32 bp):
ATGTTAAATCTCCAAAGATGCCCCAATATTCA
Found at i:3026754 original size:2 final size:2
Alignment explanation
Indices: 3026747--3026804 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
3026737 ACAACAACGG
*
3026747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3026789 AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT
3026805 GGATAAATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3028361 original size:19 final size:19
Alignment explanation
Indices: 3028339--3028377 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3028329 TTTTGTGGAC
3028339 CAACACCTCTTTTGCAGAT
1 CAACACCTCTTTTGCAGAT
3028358 CAACACCTCTTTTGCAGAT
1 CAACACCTCTTTTGCAGAT
3028377 C
1 C
3028378 CGTCCGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (19 bp):
CAACACCTCTTTTGCAGAT
Found at i:3032454 original size:20 final size:21
Alignment explanation
Indices: 3032410--3032465 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
3032400 CAGTTTCCAA
* *
3032410 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGATTATCAAG
*
3032431 ATTCGCAACGCGATTGT-AAG
1 ATTCGCAACGCGATTATCAAG
3032451 ATTCGCAACGCGATT
1 ATTCGCAACGCGATT
3032466 TTGAAAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
ATTCGCAACGCGATTATCAAG
Found at i:3032542 original size:44 final size:41
Alignment explanation
Indices: 3032465--3032546 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
3032455 GCAACGCGAT
* *
3032465 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
3032506 TTTGAAAAACATGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTG-AAAA-ATG-TGTTGCGATAGTGAAAAAGTGTTGCGA
3032547 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 4 0.11
42 4 0.11
43 3 0.08
44 25 0.69
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:3032556 original size:19 final size:20
Alignment explanation
Indices: 3032467--3032557 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
3032457 AACGCGATTT
3032467 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
3032487 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
3032506 TTTGAAAAACATGTTGTTGCGATAG
1 --TG-AAAA-ATG-TGTTGCGATAG
3032531 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
3032550 TGAAAAAT
1 TGAAAAAT
3032558 CCAAAATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 34 0.57
20 2 0.03
21 2 0.03
22 4 0.07
23 5 0.08
24 3 0.05
25 10 0.17
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:3033183 original size:104 final size:104
Alignment explanation
Indices: 3032999--3033192 Score: 257
Period size: 104 Copynumber: 1.9 Consensus size: 104
3032989 TGCACACTCA
* * * * * * *
3032999 TTTTTTGAGTGTTGTGTTGTTTAAGGTGCATGAGAAGTTTGTACTTATTAAAATATTATTTACTT
1 TTTTTTGAGTGTTATGTTGTTTAACGTGAATGAGAAGCTTATAATGATTAAAATATTATTTACTT
3033064 TTAACTTTTTCATCATTC-TTTCTTCAATATGCTCAACCG
66 TTAACTTTTTCATCA-TCATTTCTTCAATATGCTCAACCG
* *
3033103 TTTTTTGGGTGTTATGTTGTTTAACGTGAATGAGAAGCTTATAATGATTAAAATATTATTTATTT
1 TTTTTTGAGTGTTATGTTGTTTAACGTGAATGAGAAGCTTATAATGATTAAAATATTATTTACTT
**
3033168 TTTGCTTTTAT-ATCATCATTTCTTC
66 TTAACTTTT-TCATCATCATTTCTTC
3033193 GCCTTTTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 2 0.03
104 74 0.96
105 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (104 bp):
TTTTTTGAGTGTTATGTTGTTTAACGTGAATGAGAAGCTTATAATGATTAAAATATTATTTACTT
TTAACTTTTTCATCATCATTTCTTCAATATGCTCAACCG
Found at i:3034986 original size:17 final size:17
Alignment explanation
Indices: 3034964--3034997 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3034954 TATCGCAATG
3034964 CGAATATGTAAATCGCA
1 CGAATATGTAAATCGCA
3034981 CGAATATGTAAATCGCA
1 CGAATATGTAAATCGCA
3034998 ACGTGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
CGAATATGTAAATCGCA
Found at i:3035109 original size:20 final size:20
Alignment explanation
Indices: 3035054--3035112 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
3035044 ATAATACAAC
* *
3035054 GCGATTTTAACTATCACAAT
1 GCGATTCTAACTATCGCAAT
*
3035074 GCGAATATGTAA--ATCGCAAT
1 GCG-AT-TCTAACTATCGCAAT
3035094 GCGATTCTAACTATCGCAA
1 GCGATTCTAACTATCGCAA
3035113 CGTGATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 20 0.62
21 2 0.06
22 4 0.12
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (20 bp):
GCGATTCTAACTATCGCAAT
Found at i:3035132 original size:21 final size:21
Alignment explanation
Indices: 3035106--3035160 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
3035096 GATTCTAACT
*
3035106 ATCGCAACGTGATAATACAAA
1 ATCGCAACGCGATAATACAAA
3035127 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
3035148 ATCGCAACGCGAT
1 ATCGCAACGCGAT
3035161 TCTGACTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:3036149 original size:20 final size:20
Alignment explanation
Indices: 3036124--3036270 Score: 102
Period size: 20 Copynumber: 7.2 Consensus size: 20
3036114 TGCCACCAGT
3036124 CGTTGCGATAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* **
3036144 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGAATCG
*
3036165 CATTGCGATAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* * **
3036185 CGTTGTGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGAATCG
*
3036206 CATTGCGATAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* * *
3036226 CGTTGCGAT-TTACATATTCG
1 CGTTGCGATAGT-CAGAATCG
* *
3036246 CATTGCGATAGTCAAAATCG
1 CGTTGCGATAGTCAGAATCG
3036266 CGTTG
1 CGTTG
3036271 TATTATCGCG
Statistics
Matches: 93, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
19 7 0.08
20 56 0.60
21 24 0.26
22 6 0.06
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAGAATCG
Found at i:3036170 original size:21 final size:21
Alignment explanation
Indices: 3036140--3036214 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
3036130 GATAGTCAGA
*
3036140 ATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTTTGTATT
* **
3036161 ATCGCATTGCGA--TAGTCAGA
1 ATCGCATTGCGATTTTGT-ATT
* *
3036181 ATCGCGTTGTGATTTTGTATT
1 ATCGCATTGCGATTTTGTATT
3036202 ATCGCATTGCGAT
1 ATCGCATTGCGAT
3036215 AGTCAGAATC
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.08
20 11 0.28
21 23 0.57
22 3 0.08
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (21 bp):
ATCGCATTGCGATTTTGTATT
Found at i:3036183 original size:41 final size:41
Alignment explanation
Indices: 3036126--3036270 Score: 231
Period size: 41 Copynumber: 3.6 Consensus size: 41
3036116 CCACCAGTCG
3036126 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCA
*
3036167 TTGCGATAGTCAGAATCGCGTTGTGATTTTGTATTATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCA
**
3036208 TTGCGATAGTCAGAATCGCGTTGCGA-TTTACA-TATTCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTA-TCGCA
*
3036248 TTGCGATAGTCAAAATCGCGTTG
1 TTGCGATAGTCAGAATCGCGTTG
3036271 TATTATCGCG
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.02
40 31 0.32
41 65 0.66
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCA
Found at i:3036367 original size:21 final size:20
Alignment explanation
Indices: 3036352--3036436 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
3036342 TGCGATTTTC
* *
3036352 CAAATTCGCAACGCGAATATG
1 CAAA-TCGCAACGCGATTATA
* *
3036373 TAAATCGCAACGCGATAATA
1 CAAATCGCAACGCGATTATA
*
3036393 CAAAATCGCAACGCGATTCTGA
1 C-AAATCGCAACGCGATTAT-A
* *
3036415 C-TATCGCAACGCGATAATA
1 CAAATCGCAACGCGATTATA
3036434 CAA
1 CAA
3036437 CACGATTTAC
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.04
20 27 0.54
21 19 0.38
22 2 0.04
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAATCGCAACGCGATTATA
Found at i:3036430 original size:41 final size:41
Alignment explanation
Indices: 3036318--3036436 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
3036308 TTCCAGATTT
* ** ** * *
3036318 GCAACGCGATTTTGACTATCGCATTGCGATTTTCCAAATTC
1 GCAACGCGATTATGACTATCGCAACGCGATAATACAAAATC
* *
3036359 GCAACGCGAATATGTA-AATCGCAACGCGATAATACAAAATC
1 GCAACGCGATTATG-ACTATCGCAACGCGATAATACAAAATC
*
3036400 GCAACGCGATTCTGACTATCGCAACGCGATAATACAA
1 GCAACGCGATTATGACTATCGCAACGCGATAATACAA
3036437 CACGATTTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
GCAACGCGATTATGACTATCGCAACGCGATAATACAAAATC
Found at i:3036569 original size:21 final size:21
Alignment explanation
Indices: 3036545--3036605 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 21
3036535 ATTTACATAT
3036545 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
** * *
3036566 TCGCAATGCG-A-TAGTCAAAA
1 TCGCGTTGCGAATTTG-GAAAA
*
3036586 TCGCGTTGCGAATCTGGAAA
1 TCGCGTTGCGAATTTGGAAA
3036606 CTGATCCAGA
Statistics
Matches: 28, Mismatches: 9, Indels: 6
0.65 0.21 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 12 0.43
22 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:3036595 original size:20 final size:20
Alignment explanation
Indices: 3036483--3036596 Score: 54
Period size: 20 Copynumber: 5.6 Consensus size: 20
3036473 GCGTTGTATT
*
3036483 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAAA
* * **
3036503 ATCGCGTTGTGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAAA
* *
3036524 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CAAA
* * *
3036544 TTCGCGTTGCGA-ATTTGGAAA
1 ATCGCGTTGCGATA-GT-CAAA
**
3036565 ATCGCAATGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAAA
3036585 ATCGCGTTGCGA
1 ATCGCGTTGCGA
3036597 ATCTGGAAAC
Statistics
Matches: 69, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 37 0.54
21 26 0.38
22 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAAA
Found at i:3036703 original size:40 final size:41
Alignment explanation
Indices: 3036648--3036753 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 41
3036638 CGCGATAATA
* * **
3036648 CAACGCGATTTTGACTATCGCAATGCG--AATATGTAAATCG
1 CAACGCGATTCTGACTATCGCAACGCGATAATA-CAAAATCG
3036688 CAACGCGATTCTGACTATCGCAACGCGATAATACAAAATCG
1 CAACGCGATTCTGACTATCGCAACGCGATAATACAAAATCG
*
3036729 CAATGCGATTCTGACTATCGCAACG
1 CAACGCGATTCTGACTATCGCAACG
3036754 ACTGGTGGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
40 25 0.42
41 30 0.51
42 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (41 bp):
CAACGCGATTCTGACTATCGCAACGCGATAATACAAAATCG
Found at i:3036707 original size:20 final size:20
Alignment explanation
Indices: 3036648--3036753 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 20
3036638 CGCGATAATA
*
3036648 CAACGCGATTTTGACTATCG
1 CAACGCGATTATGACTATCG
* * *
3036668 CAATGCGAATATGTA-AATCG
1 CAACGCGATTATG-ACTATCG
*
3036688 CAACGCGATTCTGACTATCG
1 CAACGCGATTATGACTATCG
* *
3036708 CAACGCGATAAT-ACAAAATCG
1 CAACGCGATTATGAC--TATCG
* *
3036729 CAATGCGATTCTGACTATCG
1 CAACGCGATTATGACTATCG
3036749 CAACG
1 CAACG
3036754 ACTGGTGGTA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
19 3 0.05
20 46 0.71
21 14 0.22
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
CAACGCGATTATGACTATCG
Found at i:3037730 original size:20 final size:20
Alignment explanation
Indices: 3037705--3037810 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 20
3037695 TACCACCAGT
3037705 CGTTGCGATAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* ** *
3037725 CGTTGCGATTTTGT-ATTATCA
1 CGTTGCGA--TAGTCAGAATCG
*
3037746 CGTTGCGATAGTTAGAATCG
1 CGTTGCGATAGTCAGAATCG
* * * *
3037766 CGTTACGAT-TTACATATTCG
1 CGTTGCGATAGT-CAGAATCG
* *
3037786 CATTGCGATAGTCAAAATCG
1 CGTTGCGATAGTCAGAATCG
3037806 CGTTG
1 CGTTG
3037811 TATTATCGCG
Statistics
Matches: 62, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
19 4 0.06
20 42 0.68
21 13 0.21
22 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAGAATCG
Found at i:3037763 original size:41 final size:40
Alignment explanation
Indices: 3037705--3037864 Score: 156
Period size: 41 Copynumber: 4.1 Consensus size: 40
3037695 TACCACCAGT
*
3037705 CGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCA
1 CGTTGCGATAGTCAGAATCGCGTTGCGA-TTTGTATTATCG
* * **
3037746 CGTTGCGATAGTTAGAATCGCGTTACGATTTACA-TATTCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTTGTATTA-TCG
* *
3037786 CATTGCGATAGTCAAAAT--C---GCG--TTGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTTGTATTATCG
* *
3037819 CGTTGCGATAGTTAGAATCACGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGA-TTTGTATTATCG
3037860 CGTTG
1 CGTTG
3037865 TGATTTACAT
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
33 21 0.22
34 2 0.02
35 3 0.03
38 4 0.04
39 2 0.02
40 21 0.22
41 42 0.44
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATTTGTATTATCG
Found at i:3037869 original size:21 final size:21
Alignment explanation
Indices: 3037808--3037870 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
3037798 CAAAATCGCG
*
3037808 TTGTATTATCGCGTTGCGATA
1 TTGTATTATCGCGTTGCGATT
* ** *
3037829 GT-TAGAATCACGTTGCGATT
1 TTGTATTATCGCGTTGCGATT
*
3037849 TTGTATTATCGCGTTGTGATT
1 TTGTATTATCGCGTTGCGATT
3037870 T
1 T
3037871 ACATATTCGC
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (21 bp):
TTGTATTATCGCGTTGCGATT
Found at i:3038095 original size:20 final size:19
Alignment explanation
Indices: 3038072--3038117 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3038062 GGAAACTGAT
* *
3038072 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
3038092 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
3038111 TTGCGAT
1 TTGCGAT
3038118 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:3038107 original size:19 final size:19
Alignment explanation
Indices: 3038083--3038119 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3038073 TGCGATACTG
*
3038083 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
3038102 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
3038120 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:3039856 original size:105 final size:105
Alignment explanation
Indices: 3039670--3039863 Score: 230
Period size: 105 Copynumber: 1.8 Consensus size: 105
3039660 TTAAAAAGGC
* * * * *
3039670 GAAGAAATGATGATATAAAAGCAAAAAATAAATAATATTTTAAGCATTATAAGCTTCTCATTCAT
1 GAAGAAATGATGATATAAAAGCAAAAAATAAATAATATTTTAAGAAGTACAAACTTCTCATTCAC
* *
3039735 GTTAAACAACATAACACCCAAAAATCGGTTATGCATCATT
66 CTTAAACAACACAACACCCAAAAATCGGTTATGCATCATT
* ** * *
3039775 GAAGAAA-GAATGATGTAAAAGTTAAAAGTAAATAATATTTTAATAAGTACAAACTTCTCATGT-
1 GAAGAAATG-ATGATATAAAAGCAAAAAATAAATAATATTTTAAGAAGTACAAACTTCTCAT-TC
* *
3039838 ACCTTAAATAACACAACACTCAAAAA
64 ACCTTAAACAACACAACACCCAAAAA
3039864 AATGAGTGTG
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
104 1 0.01
105 71 0.97
106 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.27
Consensus pattern (105 bp):
GAAGAAATGATGATATAAAAGCAAAAAATAAATAATATTTTAAGAAGTACAAACTTCTCATTCAC
CTTAAACAACACAACACCCAAAAATCGGTTATGCATCATT
Found at i:3042617 original size:99 final size:104
Alignment explanation
Indices: 3042445--3042749 Score: 356
Period size: 99 Copynumber: 2.9 Consensus size: 104
3042435 ATCGTCTCAA
*
3042445 ACAAGTCAATCTAGTAATGGTTTGAAC-TTGGAGATATTACCGAAGGGAGCTT-CTATTCCTCCA
1 ACAAGTCAATCTAGTAATGGTTTGAACTTTGG-GATATTACCGAAGGGAG-TTCCTATTCCACCA
* * *
3042508 TTTGCTCCTGGAAAAGGTGGAAATAGGCCTTC-A-A-C-GT
64 TCTACTCCTGGAAAAGGTGGAAATAGGCCTCCAATATCAGT
* *
3042545 -CAAGTCAATCTAGTAATCGTTTGAACTTTGGGATATTACCAAAGGGAGTTCCTATTCCACCATC
1 ACAAGTCAATCTAGTAATGGTTTGAACTTTGGGATATTACCGAAGGGAGTTCCTATTCCACCATC
*
3042609 TACTCCTGGAAAAGGTGGAAATAGGCCTCCAATATCATT
66 TACTCCTGGAAAAGGTGGAAATAGGCCTCCAATATCAGT
* * * * * *
3042648 CCAAGCAAGTCAATCTAATAGTGGTTTGGATTTTGGTATATTAACGAAGGGAGTTCCTATTCCAC
1 ---A-CAAGTCAATCTAGTAATGGTTTGAACTTTGGGATATTACCGAAGGGAGTTCCTATTCCAC
* *
3042713 CATCTAGTCCTAGTAAAAGG-GGAAATAGGCCTCCAAT
62 CATCTACTCCT-GGAAAAGGTGGAAATAGGCCTCCAAT
3042750 GCCCTCCCAA
Statistics
Matches: 176, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
98 2 0.01
99 80 0.45
100 5 0.03
101 1 0.01
102 1 0.01
103 1 0.01
108 79 0.45
109 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (104 bp):
ACAAGTCAATCTAGTAATGGTTTGAACTTTGGGATATTACCGAAGGGAGTTCCTATTCCACCATC
TACTCCTGGAAAAGGTGGAAATAGGCCTCCAATATCAGT
Found at i:3042705 original size:108 final size:108
Alignment explanation
Indices: 3042545--3042789 Score: 330
Period size: 108 Copynumber: 2.3 Consensus size: 108
3042535 CCTTCAACGT
* * * *
3042545 CAAGTCAATCTAGTAATCGTTTGAACTTTGGGATATTACCAAAGGGAGTTCCTATTCCACCATCT
1 CAAGTCAATCTAGTAGTGGTTTGAATTTTGGGATATTAACAAAGGGAGTTCCTATTCCACCATCT
* * *
3042610 ACTCCT-GGAAAAGGTGGAAATAGGCCTCCAATATCATTCCAAG
66 ACTCCTAGGAAAAGG-GGAAATAGGCCTCCAATACCATCCCAAA
* * * *
3042653 CAAGTCAATCTAATAGTGGTTTGGATTTTGGTATATTAACGAAGGGAGTTCCTATTCCACCATCT
1 CAAGTCAATCTAGTAGTGGTTTGAATTTTGGGATATTAACAAAGGGAGTTCCTATTCCACCATCT
* * * *
3042718 AGTCCTAGTAAAAGGGGAAATAGGCCTCCAATGCCCTCCCAAA
66 ACTCCTAGGAAAAGGGGAAATAGGCCTCCAATACCATCCCAAA
*
3042761 CAAGTCAGTCTAGTAGTGGTTTGAATTTT
1 CAAGTCAATCTAGTAGTGGTTTGAATTTT
3042790 AAAAAGGGAG
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
108 111 0.94
109 7 0.06
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (108 bp):
CAAGTCAATCTAGTAGTGGTTTGAATTTTGGGATATTAACAAAGGGAGTTCCTATTCCACCATCT
ACTCCTAGGAAAAGGGGAAATAGGCCTCCAATACCATCCCAAA
Found at i:3042897 original size:39 final size:39
Alignment explanation
Indices: 3042867--3042973 Score: 214
Period size: 39 Copynumber: 2.7 Consensus size: 39
3042857 GGCCTATTCT
3042867 ACCATCTGGTCCTAATAAAAAGGGAAATAGGGATACTCC
1 ACCATCTGGTCCTAATAAAAAGGGAAATAGGGATACTCC
3042906 ACCATCTGGTCCTAATAAAAAGGGAAATAGGGATACTCC
1 ACCATCTGGTCCTAATAAAAAGGGAAATAGGGATACTCC
3042945 ACCATCTGGTCCTAATAAAAAGGGAAATA
1 ACCATCTGGTCCTAATAAAAAGGGAAATA
3042974 CACCTTCAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (39 bp):
ACCATCTGGTCCTAATAAAAAGGGAAATAGGGATACTCC
Found at i:3046589 original size:188 final size:188
Alignment explanation
Indices: 3046320--3047023 Score: 739
Period size: 187 Copynumber: 3.8 Consensus size: 188
3046310 AAATTTGGTT
* * * * *
3046320 ACATTTTTCTGTCGAAATCGAATTTATTAAAGCAACTTATAACAAACTTGATCTCAACCTAGTTT
1 ACATTTTTCTGTCAAAATCGAATTTGTTAAAGCAACTTATAACAAACCTGATCTCAACTTATTTT
* * * *
3046385 CTTATCT--ATCGCTAACATTCATGGGTGCAATCGGATTTTTTTCTACGATTGATAACATTTTCA
66 CTTAT-TGAAT-GCTAACAATCATGGGCGCAATCGGATTTTTTACCACGATTGATAACATTTTCA
* **
3046448 GCTTTCAACTTATTTTTTTACCATCCTTATTTTGATGAACCCATTTGCTAAACTCCGATA
129 GCTTTCAACTTATTTTGTTACTGTCCTTATTTTGATGAACCCATTTGCTAAACTCCGATA
* * * *
3046508 ACATTTTTTTATCAAAATTGAATTTGTTCAAGCAACTTATAACAAACCTGATCTCAACTTATTTT
1 ACATTTTTCTGTCAAAATCGAATTTGTTAAAGCAACTTATAACAAACCTGATCTCAACTTATTTT
* * * * *
3046573 CTTATTGAATGCTAACAATCCTGGACGCAA-CTAGATTTCTTACCACGATTGATAACATTTCCAG
66 CTTATTGAATGCTAACAATCATGGGCGCAATC-GGATTTTTTACCACGATTGATAACATTTTCAG
* * * **
3046637 CTTCCAACGTATTTTGTTATTGTCCTTATTTTGATGAACCCATTTGCTAAACTCAAATA
130 CTTTCAACTTATTTTGTTACTGTCCTTATTTTGATGAACCCATTTGCTAAACTCCGATA
* ** * * * * * *
3046696 ACA-TTTTCCGTTGAAACCGAATTTGTTAAAGCATCTTATAGCAATGCCT-ATCTCAATTTACTT
1 ACATTTTTCTGTCAAAATCGAATTTGTTAAAGCAACTTATAACAA-ACCTGATCTCAACTTATTT
** * * * * * *
3046759 TCTTATCAAAAGTTAACAATCATGGGTGCAAT-TGATTTTCTTATCATGATTGATAACATTTTCA
65 TCTTATTGAATGCTAACAATCATGGGCGCAATCGGATTTT-TTACCACGATTGATAACATTTTCA
* * * *
3046823 GCTTTCAACTTATATTGTTGCTGTCCTTATTTTGATGAACCTATTTGCTAAACTCCGGTA
129 GCTTTCAACTTATTTTGTTACTGTCCTTATTTTGATGAACCCATTTGCTAAACTCCGATA
* * ** *
3046883 ACA-TTTTCGGTCAAAATC-AGACTTGTTAAAGCAACTTATAACAAACCCAATTTC-A---ATTT
1 ACATTTTTCTGTCAAAATCGA-ATTTGTTAAAGCAACTTATAACAAACCTGATCTCAACTTATTT
* * * * * * *
3046942 ACTTATTGAACGCTAATAATTATGGGCGCAACCGGATTTATTACCATGATTGATAACATTTTCAG
65 TCTTATTGAATGCTAACAATCATGGGCGCAATCGGATTTTTTACCACGATTGATAACATTTTCAG
3047007 CTTTCAACTTATTTTGT
130 CTTTCAACTTATTTTGT
3047024 GAACGTTCTT
Statistics
Matches: 423, Mismatches: 84, Indels: 23
0.80 0.16 0.04
Matches are distributed among these distances:
183 66 0.16
184 5 0.01
186 9 0.02
187 180 0.43
188 161 0.38
189 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (188 bp):
ACATTTTTCTGTCAAAATCGAATTTGTTAAAGCAACTTATAACAAACCTGATCTCAACTTATTTT
CTTATTGAATGCTAACAATCATGGGCGCAATCGGATTTTTTACCACGATTGATAACATTTTCAGC
TTTCAACTTATTTTGTTACTGTCCTTATTTTGATGAACCCATTTGCTAAACTCCGATA
Found at i:3049218 original size:127 final size:127
Alignment explanation
Indices: 3048992--3049252 Score: 522
Period size: 127 Copynumber: 2.1 Consensus size: 127
3048982 TTTATATAGT
3048992 ATGACTTTGAATCCTTACACTTCATCCGCACTATGATTTCATTGTTAATAGCAAAAATCGGAATT
1 ATGACTTTGAATCCTTACACTTCATCCGCACTATGATTTCATTGTTAATAGCAAAAATCGGAATT
3049057 TTCAGGTAGCCCTAAGTCCCTAACAATCACAAATTCATTAACAGTTAGAACAAAGTTAAATA
66 TTCAGGTAGCCCTAAGTCCCTAACAATCACAAATTCATTAACAGTTAGAACAAAGTTAAATA
3049119 ATGACTTTGAATCCTTACACTTCATCCGCACTATGATTTCATTGTTAATAGCAAAAATCGGAATT
1 ATGACTTTGAATCCTTACACTTCATCCGCACTATGATTTCATTGTTAATAGCAAAAATCGGAATT
3049184 TTCAGGTAGCCCTAAGTCCCTAACAATCACAAATTCATTAACAGTTAGAACAAAGTTAAATA
66 TTCAGGTAGCCCTAAGTCCCTAACAATCACAAATTCATTAACAGTTAGAACAAAGTTAAATA
3049246 ATGACTT
1 ATGACTT
3049253 AATGAGTCAA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 134 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (127 bp):
ATGACTTTGAATCCTTACACTTCATCCGCACTATGATTTCATTGTTAATAGCAAAAATCGGAATT
TTCAGGTAGCCCTAAGTCCCTAACAATCACAAATTCATTAACAGTTAGAACAAAGTTAAATA
Found at i:3066258 original size:23 final size:20
Alignment explanation
Indices: 3066238--3066276 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3066228 TGTTTAAATT
3066238 AAAATAAATAATAATTATAAA
1 AAAATAAA-AATAATTATAAA
*
3066259 AATATAAAAATAATTATA
1 AAAATAAAAATAATTATA
3066277 CCAATCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAAAAATAATTATAAA
Found at i:3070207 original size:35 final size:35
Alignment explanation
Indices: 3070161--3070256 Score: 140
Period size: 35 Copynumber: 2.7 Consensus size: 35
3070151 AACACAATCA
3070161 TCAATTATATTCTAAACCCTAAATTCCAAAATACT
1 TCAATTATATTCTAAACCCTAAATTCCAAAATACT
3070196 TCAATTATATTCTAAA-CCTCAAATTCCAAAATACT
1 TCAATTATATTCTAAACCCT-AAATTCCAAAATACT
* * * *
3070231 TCAATTACATGCTCAACCCCAAATTC
1 TCAATTATATTCTAAACCCTAAATTC
3070257 ATAATCCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
34 3 0.05
35 50 0.91
36 2 0.04
ACGTcount: A:0.41, C:0.26, G:0.01, T:0.32
Consensus pattern (35 bp):
TCAATTATATTCTAAACCCTAAATTCCAAAATACT
Found at i:3071943 original size:18 final size:18
Alignment explanation
Indices: 3071922--3071967 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
3071912 GTCCGATTCT
3071922 TTCGACCGATCGGATTGA
1 TTCGACCGATCGGATTGA
3071940 TTCGACCGATCGGATTGA
1 TTCGACCGATCGGATTGA
3071958 TTCGACCGAT
1 TTCGACCGAT
3071968 TAAACCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (18 bp):
TTCGACCGATCGGATTGA
Found at i:3073074 original size:6 final size:6
Alignment explanation
Indices: 3073063--3073100 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
3073053 TCTTATCATC
* *
3073063 TTATAT TTATAT TTATAT TTACAT TTACAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
3073101 TTCAGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (6 bp):
TTATAT
Found at i:3074287 original size:30 final size:30
Alignment explanation
Indices: 3074251--3074383 Score: 248
Period size: 30 Copynumber: 4.4 Consensus size: 30
3074241 CCCGAAGGAC
3074251 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3074281 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3074311 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3074341 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
3074371 CTGTCCATAGGTC
1 CTATCCAGAGGTC
3074384 CCGAAGAACC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 101 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:3074400 original size:60 final size:60
Alignment explanation
Indices: 3074251--3074408 Score: 235
Period size: 60 Copynumber: 2.6 Consensus size: 60
3074241 CCCGAAGGAC
*
3074251 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3074311 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * * * *
3074371 CTGTCCATAGGTCCCGAAGAACCTAGGTAAACTATCCA
1 CTATCCAGAGGTCACAAAGATCCTCGGT-AACTATCCA
3074409 TATATTCCTT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 81 0.90
61 9 0.10
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (60 bp):
CTATCCAGAGGTCACAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:3078593 original size:30 final size:30
Alignment explanation
Indices: 3078557--3078653 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
3078547 CCCGAAGGAC
* *
3078557 CTATCCAGATGTCATAAAGATCATCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3078587 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3078617 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3078647 CTGTCCA
1 CTATCCA
3078654 TGGGTCCCGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:3078676 original size:60 final size:61
Alignment explanation
Indices: 3078557--3078684 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 61
3078547 CCCGAAGGAC
* * * *
3078557 CTATCCAGATGTCATAAAGATCATCGGTAACTATCCAGAGGTCATAAAGATCCTCGGT-AA
1 CTATCCAGAGGTCATAAAGATCATCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
* * * *
3078617 CTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCATG-GGTCCCGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCATCGGTAACTATCCA-GAGGTCACAAAGAACCTAGGTAAA
3078678 CTATCCA
1 CTATCCA
3078685 TATGTTCCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
60 48 0.83
61 10 0.17
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (61 bp):
CTATCCAGAGGTCATAAAGATCATCGGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
Found at i:3079745 original size:64 final size:64
Alignment explanation
Indices: 3079593--3079749 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
3079583 CAATGAAAGT
* * * ** *
3079593 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATCACTGGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
* * * *
3079657 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATAAAAG
3079720 AG
63 AG
3079722 -TGCATCGATGCACTACCTGTGCATCGAT
1 ATGCATCGATGCACTACCTGTGCATCGAT
3079750 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 1 0.01
64 60 0.79
65 15 0.20
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
Found at i:3081366 original size:16 final size:18
Alignment explanation
Indices: 3081341--3081379 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
3081331 AACCCAATCG
*
3081341 GTCGTGCCTCCT-CG-CC
1 GTCGTCCCTCCTCCGTCC
3081357 GTCGTCCCTCCTCCGTCC
1 GTCGTCCCTCCTCCGTCC
3081375 GTCGT
1 GTCGT
3081380 TGGTTAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 7 0.35
ACGTcount: A:0.00, C:0.49, G:0.23, T:0.28
Consensus pattern (18 bp):
GTCGTCCCTCCTCCGTCC
Found at i:3089159 original size:30 final size:31
Alignment explanation
Indices: 3089125--3089211 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
3089115 TAATTATTTG
*
3089125 AATTTTA-TATTTTATTTAAATTGATACTTA
1 AATTTTACTATTTTATTTAAATTGATACATA
* *
3089155 AATTTTAGTTATTGT-TTTAAATT-ATACATA
1 AATTTTA-CTATTTTATTTAAATTGATACATA
*
3089185 AATTTTACT-TTTTGATTCAAATTGATA
1 AATTTTACTATTTT-ATTTAAATTGATA
3089212 TTTATGATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 27 0.57
31 11 0.23
32 5 0.11
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.54
Consensus pattern (31 bp):
AATTTTACTATTTTATTTAAATTGATACATA
Found at i:3089176 original size:31 final size:31
Alignment explanation
Indices: 3089138--3089211 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
3089128 TTTATATTTT
* *
3089138 ATTTAAATTGATACTTAAATTTTAGTTATTG
1 ATTTAAATTGATACATAAATTTTACTTATTG
* *
3089169 TTTTAAATT-ATACATAAATTTTACTTTTTG
1 ATTTAAATTGATACATAAATTTTACTTATTG
*
3089199 ATTCAAATTGATA
1 ATTTAAATTGATA
3089212 TTTATGATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 25 0.69
31 11 0.31
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (31 bp):
ATTTAAATTGATACATAAATTTTACTTATTG
Found at i:3096134 original size:57 final size:57
Alignment explanation
Indices: 3095999--3096151 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 57
3095989 AAATTGGTTT
* *
3095999 TTAAACTTTTGAAT-TTTTCAATTTCATCCACAAACTATGACTCTCATTCTAAATTAGCC
1 TTAAACTTTTGAATATTTT-AATTTCATCC-CAAATTATGACACT-ATTCTAAATTAGCC
*
3096058 TTGAAACTTTTGAACATTTTAATTTCATCCCTAAATTATGACACT-TTCTAAATTAGTCC
1 TT-AAACTTTTGAATATTTTAATTTCATCCC-AAATTATGACACTATTCTAAATTAG-CC
3096117 -TAAACTTTTGAATATTTTAATTTCATCCCCAAATT
1 TTAAACTTTTGAATATTTTAATTTCAT-CCCAAATT
3096152 CATTTAAATA
Statistics
Matches: 85, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
57 29 0.34
58 15 0.18
59 5 0.06
60 32 0.38
61 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (57 bp):
TTAAACTTTTGAATATTTTAATTTCATCCCAAATTATGACACTATTCTAAATTAGCC
Found at i:3096169 original size:57 final size:57
Alignment explanation
Indices: 3096000--3096151 Score: 164
Period size: 57 Copynumber: 2.6 Consensus size: 57
3095990 AATTGGTTTT
* * * **
3096000 TAAACTTTTGAA-TTTTTCAATTTCATCCACAAACTATGACTCTCATTCTAAATTAG-CC
1 TAAACTTTTGAACATTTT-AATTTCATCCCCAAATTATGACAAT-A-TCTAAATTAGTCC
* * *
3096058 TTGAAACTTTTGAACATTTTAATTTCATCCCTAAATTATGACACTTTCTAAATTAGTCC
1 -T-AAACTTTTGAACATTTTAATTTCATCCCCAAATTATGACAATATCTAAATTAGTCC
*
3096117 TAAACTTTTGAATATTTTAATTTCATCCCCAAATT
1 TAAACTTTTGAACATTTTAATTTCATCCCCAAATT
3096152 CATTTAAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
57 32 0.39
58 11 0.13
59 3 0.04
60 32 0.39
61 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (57 bp):
TAAACTTTTGAACATTTTAATTTCATCCCCAAATTATGACAATATCTAAATTAGTCC
Found at i:3110113 original size:32 final size:32
Alignment explanation
Indices: 3110044--3110115 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
3110034 ATAAATTTTG
3110044 AAAATTTTAAGGATCATGTTGTAATAGTTCAAT
1 AAAA-TTTAAGGATCATGTTGTAATAGTTCAAT
* * *
3110077 -AAATTTAATGATCAT-TTGATAATAGTTTATT
1 AAAATTTAAGGATCATGTTG-TAATAGTTCAAT
3110108 AAAATTTA
1 AAAATTTA
3110116 GTAATAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 21 0.62
32 10 0.29
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (32 bp):
AAAATTTAAGGATCATGTTGTAATAGTTCAAT
Found at i:3111710 original size:103 final size:104
Alignment explanation
Indices: 3111583--3111790 Score: 373
Period size: 104 Copynumber: 2.0 Consensus size: 104
3111573 ACATGAACTC
* *
3111583 TAAATCTGATATCAAGTAGAACTTAAAAACAACAT-AATTTTTTTATCAATACATCAATGATTTG
1 TAAATCTGATATCAAGTAGAACTTAAAAACAACATAAACTTTTTTATCAATACATAAATGATTTG
*
3111647 ATCGGTGACGAATCTAAAAATATTTTTTAAAGTAGACAT
66 ATCGGTGACGAATCTAAAAATATTTTTTAAAATAGACAT
*
3111686 TAAATTTGATATCAAGTAGAACTTAAAAACAACATAAACTTTTTTATCAATACATAAATGATTTG
1 TAAATCTGATATCAAGTAGAACTTAAAAACAACATAAACTTTTTTATCAATACATAAATGATTTG
3111751 ATCGGTGACGAATCTAAAAATATTTTTTAAAATAGACAT
66 ATCGGTGACGAATCTAAAAATATTTTTTAAAATAGACAT
3111790 T
1 T
3111791 CATGTATTAA
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 34 0.34
104 66 0.66
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (104 bp):
TAAATCTGATATCAAGTAGAACTTAAAAACAACATAAACTTTTTTATCAATACATAAATGATTTG
ATCGGTGACGAATCTAAAAATATTTTTTAAAATAGACAT
Found at i:3112664 original size:18 final size:18
Alignment explanation
Indices: 3112615--3112665 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
3112605 AAAAATGATC
*
3112615 ATCATCATCATCGAA-TG
1 ATCATCATCATCCAATTG
***
3112632 ATCATCATTGGCCAATTG
1 ATCATCATCATCCAATTG
3112650 ATCATCATCATCCAAT
1 ATCATCATCATCCAAT
3112666 GGTCAGTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (18 bp):
ATCATCATCATCCAATTG
Found at i:3117543 original size:15 final size:16
Alignment explanation
Indices: 3117523--3117552 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3117513 CGTCTTCTGA
3117523 AAATTTTAA-ATTTTT
1 AAATTTTAATATTTTT
3117538 AAATTTTAATATTTT
1 AAATTTTAATATTTT
3117553 ATTAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTTTAATATTTTT
Found at i:3142303 original size:39 final size:39
Alignment explanation
Indices: 3142259--3142333 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
3142249 AAGAAAAAAT
*
3142259 AATTTATTTGAAAATTATTAACTGAACCAAATTAACTGA
1 AATTTATTTGAAAATTATTAACAGAACCAAATTAACTGA
3142298 AATTTATTTGAAAATTATTAACAGAACCAAATTAAC
1 AATTTATTTGAAAATTATTAACAGAACCAAATTAAC
3142334 CAATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.35
Consensus pattern (39 bp):
AATTTATTTGAAAATTATTAACAGAACCAAATTAACTGA
Found at i:3142405 original size:26 final size:25
Alignment explanation
Indices: 3142349--3142405 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
3142339 TTTTTAACAT
*
3142349 TAATCGAACCAAAATTATTTGACCG
1 TAATTGAACCAAAATTATTTGACCG
*
3142374 TTAATTGAACCGAAATTTATTTGAACCG
1 -TAATTGAACC-AAAATTATTTG-ACCG
3142402 -AATT
1 TAATT
3142406 TTTTCTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 13 0.48
27 10 0.37
28 4 0.15
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (25 bp):
TAATTGAACCAAAATTATTTGACCG
Found at i:3142423 original size:70 final size:69
Alignment explanation
Indices: 3142337--3142468 Score: 228
Period size: 70 Copynumber: 1.9 Consensus size: 69
3142327 AATTAACCAA
*
3142337 TTTTTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATTGAACCGAAATTTATTTGAACCG
1 TTTTTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAACCG
3142402 AATT
66 AATT
* *
3142406 TTTTCTTTAACATTAATCTAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAA
1 TTTT-TTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAA
3142469 AATTATTAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
69 4 0.07
70 55 0.93
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (69 bp):
TTTTTTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAACCG
AATT
Found at i:3142491 original size:70 final size:68
Alignment explanation
Indices: 3142344--3142483 Score: 176
Period size: 70 Copynumber: 2.0 Consensus size: 68
3142334 CAATTTTTTT
* *
3142344 AACATTAATCGAACCAAAATTATTTGACCGTTAATTGAACCGAAATTTATTTGAACCGAATTTTT
1 AACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAA-C-AATTTTA
* **
3142409 TCTTT
64 ACTCG
* *
3142414 AACATTAATCTAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAA-AATTATTAA
1 AACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAACAATT-TTAA
3142478 C-CG
65 CTCG
3142481 AAC
1 AAC
3142484 CAAATTAACC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 7 0.11
68 3 0.05
70 52 0.84
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (68 bp):
AACATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAACAATTTTAAC
TCG
Done.