Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 136 of 297
Found at i:46648940 original size:54 final size:54
Alignment explanation
Indices: 46648842--46648984 Score: 173
Period size: 54 Copynumber: 2.6 Consensus size: 54
46648832 CTCAATGGCC
46648842 TTTCATTTAGAGTTCGCCACAAAGGTAA-TTCTCTT-AGAACTTGCCACAAAGGAA
1 TTTCATTTAGAGTTCGCCACAAAGG-AATTTCT-TTCAGAACTTGCCACAAAGGAA
* * * ** *
46648896 TTTCTTTTAGAGTTCGCTACAAAGGCATTTCTTTCAGAGTTTGCCACAAAGGCA
1 TTTCATTTAGAGTTCGCCACAAAGGAATTTCTTTCAGAACTTGCCACAAAGGAA
* * *
46648950 TGTCCTTCAGAGTTCGCCACAAAGGAATTTCTTTC
1 TTTCATTTAGAGTTCGCCACAAAGGAATTTCTTTC
46648985 CTGACGTGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.04
54 73 0.96
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (54 bp):
TTTCATTTAGAGTTCGCCACAAAGGAATTTCTTTCAGAACTTGCCACAAAGGAA
Found at i:46657611 original size:27 final size:27
Alignment explanation
Indices: 46657570--46657661 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
46657560 CCTTAATCTA
* * *
46657570 TAAAATAACTATTTTGCCCCCATGAGG
1 TAAAATGACTGTTTTGCCCTCATGAGG
* *
46657597 TAAAATGACTGTTTTACCCTCATAAGG
1 TAAAATGACTGTTTTGCCCTCATGAGG
* *
46657624 TAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTCATGAGG
46657651 TAAAATGACTG
1 TAAAATGACTG
46657662 AAACGCCCCT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTCATGAGG
Found at i:46659672 original size:27 final size:27
Alignment explanation
Indices: 46659641--46659818 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46659631 TAAATTGTAC
46659641 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
46659668 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46659694 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
46659722 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
46659750 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
46659777 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
46659804 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46659819 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:46659755 original size:82 final size:81
Alignment explanation
Indices: 46659642--46659797 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46659632 AAATTGTACA
* *
46659642 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46659706 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
46659723 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46659788 TGCGAGTTGA
65 TGCGAATTGA
46659798 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46659809 original size:82 final size:81
Alignment explanation
Indices: 46659638--46659818 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
46659628 GATTAAATTG
* *
46659638 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46659703 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
46659719 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46659783 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46659801 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46659819 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46661434 original size:18 final size:18
Alignment explanation
Indices: 46661411--46661445 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46661401 GGGCTTGCAT
46661411 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
46661429 ACTGTTTACTGTTACTG
1 ACTGTTTACTGTTACTG
46661446 TAATGGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:46662413 original size:32 final size:32
Alignment explanation
Indices: 46662363--46662428 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
46662353 ATCTTAACCC
*
46662363 AACTACAGAAATTGTCTAGATTCATGAATAGA
1 AACTACAGAAATTCTCTAGATTCATGAATAGA
* * *
46662395 AACTACTGTAATTCTCTAGATTCATGAATGGA
1 AACTACAGAAATTCTCTAGATTCATGAATAGA
46662427 AA
1 AA
46662429 TTGCAAACGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (32 bp):
AACTACAGAAATTCTCTAGATTCATGAATAGA
Found at i:46663090 original size:13 final size:13
Alignment explanation
Indices: 46663072--46663097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46663062 AACTCTATCT
46663072 TATGATTATCTTC
1 TATGATTATCTTC
46663085 TATGATTATCTTC
1 TATGATTATCTTC
46663098 ACTTTCCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TATGATTATCTTC
Found at i:46668143 original size:40 final size:40
Alignment explanation
Indices: 46668113--46668322 Score: 287
Period size: 40 Copynumber: 5.3 Consensus size: 40
46668103 GGACTAAGAT
* * * *
46668113 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46668153 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
46668193 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * *
46668233 TCGAAGGCATTCGTGCGAGTTGTTAAAACCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
46668273 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46668312 CCGAAGGCATT
1 CCGAAGGCATT
46668323 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 34 0.22
40 121 0.78
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:46676813 original size:21 final size:22
Alignment explanation
Indices: 46676787--46676829 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
46676777 AACGAGCTCA
46676787 TTGAGCTAAGTTGAG-TTGAAG
1 TTGAGCTAAGTTGAGCTTGAAG
* *
46676808 TTGAGCTGATTTGAGCTTGAAG
1 TTGAGCTAAGTTGAGCTTGAAG
46676830 GAGTATGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.35
Consensus pattern (22 bp):
TTGAGCTAAGTTGAGCTTGAAG
Found at i:46679856 original size:36 final size:36
Alignment explanation
Indices: 46679809--46679879 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
46679799 AACATCAGAT
46679809 CAGCAGGAAAATAGATATCTCGAATCAATAACGGGC
1 CAGCAGGAAAATAGATATCTCGAATCAATAACGGGC
46679845 CAGCAGGAAAATAGATATCTCGAATCAATAACGGG
1 CAGCAGGAAAATAGATATCTCGAATCAATAACGGG
46679880 TAATTCTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (36 bp):
CAGCAGGAAAATAGATATCTCGAATCAATAACGGGC
Found at i:46683792 original size:30 final size:30
Alignment explanation
Indices: 46683758--46683818 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46683748 TCCTTAACTC
46683758 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
46683788 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
46683818 A
1 A
46683819 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:46684732 original size:27 final size:26
Alignment explanation
Indices: 46684689--46684763 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
46684679 GGCTTAAAGG
* * * *
46684689 TTAAGATTTAAAGTTTAGTGTTAAGAT
1 TTAAGATTTAGA-TTTAGGGTTAAAAC
46684716 TTAAGATTTAGGATTTAGGGTTAAAAC
1 TTAAGATTTA-GATTTAGGGTTAAAAC
*
46684743 TTAAGACTTATGATTTAGGGT
1 TTAAGATTTA-GATTTAGGGT
46684764 ATAACTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (26 bp):
TTAAGATTTAGATTTAGGGTTAAAAC
Found at i:46684846 original size:21 final size:21
Alignment explanation
Indices: 46684821--46684870 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
46684811 GGGTTTTATT
*
46684821 AAAATAAATTT-GATAATACAA
1 AAAATAAATTTGGA-AAAACAA
46684842 AAAATAAATTTGGAAAAACAA
1 AAAATAAATTTGGAAAAACAA
*
46684863 AACATAAA
1 AAAATAAA
46684871 GGAGCTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (21 bp):
AAAATAAATTTGGAAAAACAA
Found at i:46687645 original size:16 final size:16
Alignment explanation
Indices: 46687624--46687657 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46687614 AGCTAGTAGC
46687624 ACATTATCAAAAATTA
1 ACATTATCAAAAATTA
46687640 ACATTATCAAAAATTA
1 ACATTATCAAAAATTA
46687656 AC
1 AC
46687658 TTTTTTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (16 bp):
ACATTATCAAAAATTA
Found at i:46689664 original size:30 final size:30
Alignment explanation
Indices: 46689630--46689690 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46689620 TCCTTAACTC
46689630 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46689660 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46689690 A
1 A
46689691 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46692075 original size:27 final size:27
Alignment explanation
Indices: 46692039--46692092 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46692029 CACGTTTAAT
*
46692039 ATATTCTTTCCCATATCTTGTACTCTA
1 ATATTCTTTCCCATATATTGTACTCTA
46692066 ATATTCTTTCCCATATATTGTACTCTA
1 ATATTCTTTCCCATATATTGTACTCTA
46692093 TCATCAGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (27 bp):
ATATTCTTTCCCATATATTGTACTCTA
Found at i:46692257 original size:42 final size:43
Alignment explanation
Indices: 46692152--46692293 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
46692142 TCGACTCTCG
* **
46692152 GACATGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCA
1 GACATGGTCTTACATGTAAATCAGTATCGATGCCGATGTCCCA
* * *
46692195 GACAGGGTCTTACACG-AAATCAG-ATGTGATGCCGATGTCCC-
1 GACATGGTCTTACATGTAAATCAGTAT-CGATGCCGATGTCCCA
* *
46692236 GACATGGTCTTACATGTAAATCTCA-AATCGAGGCCTG-TGTCCCA
1 GACATGGTCTTACATGTAAA--TCAGTATCGATGCC-GATGTCCCA
*
46692280 GACACGGTCTTACA
1 GACATGGTCTTACA
46692294 CGATATCCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
41 16 0.20
42 21 0.26
43 25 0.31
44 19 0.23
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (43 bp):
GACATGGTCTTACATGTAAATCAGTATCGATGCCGATGTCCCA
Found at i:46692306 original size:43 final size:42
Alignment explanation
Indices: 46692177--46692311 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 42
46692167 GTAATTCAGT
* * *
46692177 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAAT-CAG
1 ATCGATGCCTGTGTCCCAGACACGGTCTTACACGAAATCCAA
* * *
46692218 ATGTGATGCC-GATGTCCC-GACATGGTCTTACATGTAAATCTCAA
1 AT-CGATGCCTG-TGTCCCAGACACGGTCTTACACG-AAATC-CAA
* *
46692262 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGATATCCCAA
1 ATCGATGCCTGTGTCCCAGACACGGTCTTACACGAAAT-CCAA
46692305 ATCGATG
1 ATCGATG
46692312 TCAACGTTCC
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
41 16 0.21
42 16 0.21
43 23 0.31
44 20 0.27
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (42 bp):
ATCGATGCCTGTGTCCCAGACACGGTCTTACACGAAATCCAA
Found at i:46693211 original size:21 final size:20
Alignment explanation
Indices: 46693172--46693224 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
46693162 ATCAGCTCAC
*
46693172 TTGAGCTCGATTTATCTCGT
1 TTGAGCTCGATTTAGCTCGT
*
46693192 TTGAGCTTGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
46693213 TTCAGCTC-ATTT
1 TTGAGCTCGATTT
46693225 CTTTTACATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 8 0.29
21 16 0.57
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:46693457 original size:13 final size:13
Alignment explanation
Indices: 46693439--46693473 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
46693429 ATTATATGAA
*
46693439 TAATTATTTTATT
1 TAATTATGTTATT
46693452 TAATTATGTTATT
1 TAATTATGTTATT
46693465 TAATTATGT
1 TAATTATGT
46693474 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:46697247 original size:47 final size:47
Alignment explanation
Indices: 46697178--46697270 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
46697168 TTCATAATTA
46697178 AACACTTTAATGGCATGTAAGTTCATAAATGGCAGCATGAACCTAGC
1 AACACTTTAATGGCATGTAAGTTCATAAATGGCAGCATGAACCTAGC
*
46697225 AACACTTTAATGGCATGTAAGTTCATAAATGGTAGCATGAACCTAG
1 AACACTTTAATGGCATGTAAGTTCATAAATGGCAGCATGAACCTAG
46697271 TAAATTCGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (47 bp):
AACACTTTAATGGCATGTAAGTTCATAAATGGCAGCATGAACCTAGC
Found at i:46698091 original size:43 final size:43
Alignment explanation
Indices: 46698030--46698115 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
46698020 GGCAAGAAGA
46698030 AGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAAC
1 AGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAAC
46698073 AGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAAC
1 AGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAAC
46698116 TTCTAAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (43 bp):
AGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAAC
Found at i:46704880 original size:27 final size:26
Alignment explanation
Indices: 46704832--46704891 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46704822 GCGAGGCTGC
*
46704832 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
46704859 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
46704885 CAGATAT
1 CAGATAT
46704892 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:46704980 original size:27 final size:26
Alignment explanation
Indices: 46704932--46704983 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46704922 GCGACGCTGC
*
46704932 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
46704958 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
46704984 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46705234 original size:11 final size:11
Alignment explanation
Indices: 46705218--46705254 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
46705208 TGGCCCATTA
46705218 GCCCGTTTTCG
1 GCCCGTTTTCG
46705229 GCCCG--TT-G
1 GCCCGTTTTCG
46705237 GCCCGTTTTCG
1 GCCCGTTTTCG
46705248 GCCCGTT
1 GCCCGTT
46705255 AAGCCCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 2 0.09
11 13 0.57
ACGTcount: A:0.00, C:0.38, G:0.30, T:0.32
Consensus pattern (11 bp):
GCCCGTTTTCG
Found at i:46705240 original size:19 final size:19
Alignment explanation
Indices: 46705218--46705254 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
46705208 TGGCCCATTA
46705218 GCCCGTTTTCGGCCCGTTG
1 GCCCGTTTTCGGCCCGTTG
46705237 GCCCGTTTTCGGCCCGTT
1 GCCCGTTTTCGGCCCGTT
46705255 AAGCCCAAAA
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:0.00, C:0.38, G:0.30, T:0.32
Consensus pattern (19 bp):
GCCCGTTTTCGGCCCGTTG
Found at i:46709101 original size:43 final size:43
Alignment explanation
Indices: 46708954--46709103 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
46708944 TATCCGAGAT
* * *
46708954 ATGGTCTTACA-TTTATCACATATTGATGCCAATAG-CCCAG-C
1 ATGGTCTTACACATAATCACATAATGATGCCAAT-GTCCCAGAC
* * * * ** *
46708995 AATTGTCTTACACAAAATTAAATAATGATGCCAATGTTGCAGAT
1 -ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* * * *
46709039 AAGGTCTTGCACGTAATCACAGAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
46709082 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
46709104 CTCGTTAATC
Statistics
Matches: 80, Mismatches: 25, Indels: 5
0.73 0.23 0.05
Matches are distributed among these distances:
42 11 0.14
43 69 0.86
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
Found at i:46712030 original size:48 final size:48
Alignment explanation
Indices: 46711952--46712171 Score: 305
Period size: 48 Copynumber: 4.6 Consensus size: 48
46711942 CATGGTTAAC
* * **
46711952 GAGAGTCAGTGTAAGACCTTGTCTGGGACATGGCATCACCGTTGATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATAT
* * *
46712000 GTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATAT
* * *
46712048 GAGAGCCAGTGTAAGACCATGTTTAGGACATGGCATCGGCGTCGATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATAT
* * * *
46712096 AAGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGTGTTGAAAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATAT
*
46712144 GAGAGCCAGTATAAGACCATGTCTGGGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGA
46712172 TATGCTAATA
Statistics
Matches: 149, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATAT
Found at i:46715225 original size:40 final size:40
Alignment explanation
Indices: 46715127--46715389 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
46715117 TCCTCGTTCA
* * * ** *
46715127 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
46715166 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
46715206 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
46715246 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
46715286 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
46715326 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
46715366 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46715390 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:46723119 original size:40 final size:40
Alignment explanation
Indices: 46723071--46723498 Score: 741
Period size: 40 Copynumber: 10.7 Consensus size: 40
46723061 GCAAACACAT
* *
46723071 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46723111 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46723151 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46723191 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46723231 TTGCCTTCGGGTCATAGCCCGGATATATTC-ACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATA-TCAACTCGCATAA
46723271 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46723311 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46723351 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46723391 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46723431 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46723471 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
46723499 TCCAATGCTC
Statistics
Matches: 375, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 2 0.01
40 371 0.99
41 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46726367 original size:48 final size:48
Alignment explanation
Indices: 46726246--46726410 Score: 179
Period size: 48 Copynumber: 3.5 Consensus size: 48
46726236 CCAATGTATA
* * * *
46726246 TGGGACATGGCATCGGCATTAATATGAGAGCCAGTGCAAGACCATGT-
1 TGGGACATGGCATCAGCATTGATATGTGAGCCAGTGTAAGACCATGTC
* * ** ** *
46726293 TTGGAGATGGCATTGGTGTTGATATGTGAGCCAATGTAAGACCATGTC
1 TGGGACATGGCATCAGCATTGATATGTGAGCCAGTGTAAGACCATGTC
* * * * *
46726341 TGGGACATGGCATAAGCTTTGATATGTGTGCTAGTGTAAGACCATTTC
1 TGGGACATGGCATCAGCATTGATATGTGAGCCAGTGTAAGACCATGTC
46726389 TGGGACATGGCATCAGCATTGA
1 TGGGACATGGCATCAGCATTGA
46726411 CATGAGACTT
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
47 38 0.40
48 58 0.60
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
TGGGACATGGCATCAGCATTGATATGTGAGCCAGTGTAAGACCATGTC
Found at i:46726429 original size:48 final size:48
Alignment explanation
Indices: 46726329--46726441 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 48
46726319 TGAGCCAATG
* * * * * *
46726329 TAAGACCATGTCTGGGACATGGCATAAGCTTTGATATGTGTGCTAGTG
1 TAAGACCATATCTGGGACATGGCATAAGCATTGACATGAGTACTAGTA
* * *
46726377 TAAGACCATTTCTGGGACATGGCATCAGCATTGACATGAG-ACTTCGTA
1 TAAGACCATATCTGGGACATGGCATAAGCATTGACATGAGTAC-TAGTA
46726425 TAAGACCATATCTGGGA
1 TAAGACCATATCTGGGA
46726442 TAAGCTATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.02
48 54 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGGCATAAGCATTGACATGAGTACTAGTA
Found at i:46733991 original size:48 final size:48
Alignment explanation
Indices: 46733934--46734357 Score: 587
Period size: 48 Copynumber: 8.8 Consensus size: 48
46733924 ACCCTGGTTA
* *
46733934 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * *
46733982 ATAAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGTGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* *
46734030 ATGAGAGCCAGTGTAAGACCATGTTTTGGACATGGCATCGGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* **
46734078 ATGGGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * *
46734126 ATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCGACATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
46734174 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * * *
46734222 ATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATTGTCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * * * * * *
46734270 ATGTGAGGCGGTGTATGACCATGCCTGGAACATGGCATGGGCGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* * * * *
46734318 ATGTGTGCTAGTGTAAGACCATGTCTGAGACATAGCATCG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46734358 ACACTGACAT
Statistics
Matches: 332, Mismatches: 44, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 332 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
Found at i:46744867 original size:40 final size:41
Alignment explanation
Indices: 46744771--46744875 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
46744761 CGAATGATGT
*
46744771 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
46744811 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
46744851 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46744876 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:46750426 original size:10 final size:10
Alignment explanation
Indices: 46750411--46750435 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46750401 AAAACTACCC
46750411 TGAATTTGGA
1 TGAATTTGGA
46750421 TGAATTTGGA
1 TGAATTTGGA
46750431 TGAAT
1 TGAAT
46750436 AGTGAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (10 bp):
TGAATTTGGA
Found at i:46751931 original size:27 final size:27
Alignment explanation
Indices: 46751901--46752320 Score: 457
Period size: 27 Copynumber: 15.9 Consensus size: 27
46751891 TGGTAATTCT
*
46751901 ATTCTACCCTACAGGGGTATTTCAGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* *
46751928 ATTCTACCCTACAGGGGTATTGCGATA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
46751955 ATTCTACCCTACAGGGGTATTCCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
46751982 ATTCTACCCTATAGGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
46752009 ATTCTACCCTATAGGGGTA-TTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
**
46752035 ATTCTACCCTACAGGGGTATTTTTGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
46752062 ATTCTACCCTACAGGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
46752089 ATTCTACCCTACAGGGGTATTCCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
46752116 ATTCTACCCTACAGGGGT-GTT--G--
1 ATTCTACCCTACAGGGGTATTTCGGTA
* * *
46752138 -CTCTACCCTATAGGGGTATTTCGATA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* *
46752164 ATTCTACCCTATAGGGGTATTCCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
46752191 ATTCTACCCTACAGGGGTA-TTCTAGTA
1 ATTCTACCCTACAGGGGTATTTC-GGTA
* * **
46752218 ATTCTACCATATAAAGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* ** *
46752245 ATTTTA-CAAACTAGGGGTATTTTGGTA
1 ATTCTACCCTAC-AGGGGTATTTCGGTA
* *** *
46752272 ATTTTA-TAAACTAGGGGTATTTTGGTA
1 ATTCTACCCTAC-AGGGGTATTTCGGTA
* *
46752299 ATTCTATCCTA-AAGGGTATTTC
1 ATTCTACCCTACAGGGGTATTTC
46752321 AGAAATTTCA
Statistics
Matches: 339, Mismatches: 43, Indels: 23
0.84 0.11 0.06
Matches are distributed among these distances:
21 15 0.04
22 2 0.01
24 1 0.00
26 40 0.12
27 277 0.82
28 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTCTACCCTACAGGGGTATTTCGGTA
Found at i:46752318 original size:209 final size:209
Alignment explanation
Indices: 46751930--46752318 Score: 543
Period size: 209 Copynumber: 1.9 Consensus size: 209
46751920 TTTCAGTAAT
*
46751930 TCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTATA
1 TCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACA
* * ** ** *
46751995 GGGGTATTTCGGTAATTCTACCCTATAGGGGTATTCGGTAATTCTACCCTACAGGGGTATTTTTG
66 GGGGTATTTCAGTAATTCTACCATATAAAGGTATTCGGTAATTCTACCAAACAGGGGTATTTTGG
** *
46752060 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCC
131 TAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCC
46752125 TACAGGGGTGTTGC
196 TACAGGGGTGTTGC
* * *
46752139 TCTACCCTATAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACA
1 TCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACA
*
46752204 GGGGTA-TTCTAGTAATTCTACCATATAAAGGTATTTCGGTAATTTTA-CAAACTAGGGGTATTT
66 GGGGTATTTC-AGTAATTCTACCATATAAAGGTA-TTCGGTAATTCTACCAAAC-AGGGGTATTT
* * * *
46752267 TGGTAATTTTA-TAAACTAGGGGTATTTTGGTAATTCTATCCTA-AAGGGTATT
128 TGGTAATTCTACCAAAC-AGGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
46752319 TCAGAAATTT
Statistics
Matches: 157, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
208 3 0.02
209 99 0.63
210 55 0.35
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (209 bp):
TCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACA
GGGGTATTTCAGTAATTCTACCATATAAAGGTATTCGGTAATTCTACCAAACAGGGGTATTTTGG
TAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCC
TACAGGGGTGTTGC
Found at i:46752368 original size:27 final size:27
Alignment explanation
Indices: 46752332--46752529 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
46752322 GAAATTTCAC
* *
46752332 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
46752359 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
46752386 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
46752413 AATCGAGGGTAAAATGGTAGTTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
46752440 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
46752467 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
46752494 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
46752521 AATCGAGGG
1 AATCGAGGG
46752530 CATTTCAGTA
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:46752448 original size:81 final size:81
Alignment explanation
Indices: 46752332--46752529 Score: 308
Period size: 81 Copynumber: 2.4 Consensus size: 81
46752322 GAAATTTCAC
* * * *
46752332 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGATAATTTTGTAAATCGAGGGT
*
46752396 AAAACGGTAATTCTATA
65 AAAACGATAATTCTATA
* *
46752413 AATCGAGGGTAAAATGGTAGTTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
46752478 AAACGATAATTCTATA
66 AAACGATAATTCTATA
*
46752494 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
46752530 CATTTCAGTA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
81 106 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:46752569 original size:81 final size:81
Alignment explanation
Indices: 46752332--46752553 Score: 250
Period size: 81 Copynumber: 2.7 Consensus size: 81
46752322 GAAATTTCAC
* ** * * * * *
46752332 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGGCAAAACGATAATTTTGTAAAGCAAGGGT
* *
46752396 AAAACGGTAATTCTATA
65 GAAACGATAATTCTATA
* * * * *
46752413 AATCGAGGGTAAAATGGTAGTTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCAAAACGATAATTTTGTAAAGCAAGGGTG
46752478 AAACGATAATTCTATA
66 AAACGATAATTCTATA
***
46752494 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCATTTC-AGTAATTTTGTAAAGCAA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCAAAACGA-TAATTTTGTAAAGCAA
46752554 TGGTATTTCT
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 122 0.98
82 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCAAAACGATAATTTTGTAAAGCAAGGGTG
AAACGATAATTCTATA
Found at i:46752624 original size:27 final size:27
Alignment explanation
Indices: 46752594--46752815 Score: 155
Period size: 27 Copynumber: 8.3 Consensus size: 27
46752584 GGAATTTCTG
* *
46752594 TAATTTTGTAAATCAGGGGTATTTTGA
1 TAATTTTATAAACCAGGGGTATTTTGA
* ** *
46752621 TAATTTTACAAA-TTGAGGGTATTTTGG
1 TAATTTTATAAACCAG-GGGTATTTTGA
* * * *
46752648 TAATTTCACAAACCAGTGGTATTTAGA
1 TAATTTTATAAACCAGGGGTATTTTGA
*
46752675 TAATTTTAAAAACCAGGGGTATTTTTG-
1 TAATTTTATAAACCAGGGGTA-TTTTGA
* * *
46752702 TAAATTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAACCAGGGGTATTTTGA
* *
46752729 TAATTTTATAAACAAAGGGTATTTT-A
1 TAATTTTATAAACCAGGGGTATTTTGA
* * * ** * *
46752755 GTAATTTTACAATCGA-CAGTATTTCGG
1 -TAATTTTATAAACCAGGGGTATTTTGA
* * *
46752782 TAATTTTATAAACCGGGGGTACTTTGG
1 TAATTTTATAAACCAGGGGTATTTTGA
46752809 TAATTTT
1 TAATTTT
46752816 TCAACTGAGG
Statistics
Matches: 151, Mismatches: 37, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
26 23 0.15
27 123 0.81
28 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TAATTTTATAAACCAGGGGTATTTTGA
Found at i:46752750 original size:81 final size:81
Alignment explanation
Indices: 46752593--46752763 Score: 197
Period size: 81 Copynumber: 2.1 Consensus size: 81
46752583 GGGAATTTCT
** * * **
46752593 GTAATTTTGTAAATCAGGGGTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACA
1 GTAATTTTAAAAACCAGGGGTATTTTGATAAATTTACAAACAGAGGGTATTTTGGTAATTTCACA
*
46752658 AACCAGTGGTA-TTTA
66 AACAAGTGGTATTTTA
*
46752673 GATAATTTTAAAAACCAGGGGTATTTTTG-TAAATTTACAAACCAG-GGGTATTTTGGTAATTTT
1 G-TAATTTTAAAAACCAGGGGTA-TTTTGATAAATTTACAAA-CAGAGGGTATTTTGGTAATTTC
*
46752736 ATAAACAAAG-GGTATTTTA
63 ACAAAC-AAGTGGTATTTTA
46752755 GTAATTTTA
1 GTAATTTTA
46752764 CAATCGACAG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
80 1 0.01
81 63 0.82
82 13 0.17
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (81 bp):
GTAATTTTAAAAACCAGGGGTATTTTGATAAATTTACAAACAGAGGGTATTTTGGTAATTTCACA
AACAAGTGGTATTTTA
Found at i:46752802 original size:53 final size:54
Alignment explanation
Indices: 46752637--46752815 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 54
46752627 TACAAATTGA
* * ** * *
46752637 GGGTATTTTGGTAATTTCACAAACCAGTGGTATTTAGATAATTTTAAAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAGCAGTATTTAGGTAATTTTATAAACCAG
* * ** * * *
46752691 GGGTATTTTTGTAAATTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGCAGTATTTAGGTAATTTTATAAACCAG
* * * *
46752745 GGGTATTTTAGTAATTTTACAATCGA-CAGTATTTCGGTAATTTTATAAACCGG
1 GGGTATTTTAGTAATTTTACAAACCAGCAGTATTTAGGTAATTTTATAAACCAG
* *
46752798 GGGTACTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
46752816 TCAACTGAGG
Statistics
Matches: 104, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
53 37 0.36
54 67 0.64
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGCAGTATTTAGGTAATTTTATAAACCAG
Found at i:46752830 original size:53 final size:53
Alignment explanation
Indices: 46752637--46752840 Score: 171
Period size: 54 Copynumber: 3.8 Consensus size: 53
46752627 TACAAATTGA
* * * * * *
46752637 GGGTATTTTGGTAATTTCACAAAC-CAGTGGTATTTAGATAATTTTAAAAACCAG
1 GGGTATTTTAGTAATTTTAC-AACTGAG-GGTATTTCGGTAATTTTATAAACCAG
* * * * * *
46752691 GGGTATTTTTGTAAATTTACAAAC-CAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTAC-AACTGA-GGGTATTTCGGTAATTTTATAAACCAG
** *
46752745 GGGTATTTTAGTAATTTTACAA-TCGACAGTATTTCGGTAATTTTATAAACCGG
1 GGGTATTTTAGTAATTTTACAACT-GAGGGTATTTCGGTAATTTTATAAACCAG
* * * *
46752798 GGGTACTTTGGTAATTTTTCAACTGAGGGTATTTCAGTAATTT
1 GGGTATTTTAGTAATTTTACAACTGAGGGTATTTCGGTAATTT
46752841 GGTAAAGTAA
Statistics
Matches: 123, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
53 58 0.47
54 64 0.52
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAACTGAGGGTATTTCGGTAATTTTATAAACCAG
Found at i:46752837 original size:26 final size:26
Alignment explanation
Indices: 46752744--46752840 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 26
46752734 TTATAAACAA
* *
46752744 AGGGTATTTTAGTAATTTTACAA-TCG
1 AGGGTATTTCAGTAATTTTTCAACT-G
** * * *
46752770 ACAGTATTTCGGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTT-TCAACTG
* *
46752797 GGGGTACTTT-GGTAATTTTTCAACTG
1 AGGGTA-TTTCAGTAATTTTTCAACTG
46752823 AGGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
46752841 GGTAAAGTAA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
25 3 0.06
26 32 0.60
27 15 0.28
28 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTTTCAACTG
Found at i:46754808 original size:6 final size:6
Alignment explanation
Indices: 46754790--46754855 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
46754780 AAGAAACATT
* * *
46754790 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
46754839 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
46754856 GTAACAGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:46754835 original size:31 final size:31
Alignment explanation
Indices: 46754799--46754865 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
46754789 TATCAGAACT
* * *
46754799 AGAATCAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
46754830 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
46754861 AGAAT
1 AGAAT
46754866 AAAAAATCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:46755057 original size:27 final size:26
Alignment explanation
Indices: 46755015--46755116 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 26
46755005 GCTCAGTTAT
* *
46755015 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
46755042 CAGATATTGT-AGCAGAGCCACCAGAA
1 CAGATATTGTGA-CAGAGCCACCAGAA
* *
46755068 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAG-AA
* * *
46755096 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGACAGAGCCAC
46755117 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.12
27 49 0.75
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:46755099 original size:54 final size:53
Alignment explanation
Indices: 46755015--46755116 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
46755005 GCTCAGTTAT
* * * * *
46755015 CAGATATTGTGACAGAGTCACTAGATACAGATATTGTAGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
* * *
46755068 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCAC
46755117 TTAACAGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 6 0.15
54 34 0.85
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
Found at i:46755285 original size:22 final size:22
Alignment explanation
Indices: 46755257--46755321 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
46755247 GCAAATACGT
*
46755257 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
46755279 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
46755301 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
46755322 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:46755804 original size:27 final size:27
Alignment explanation
Indices: 46755747--46756086 Score: 448
Period size: 27 Copynumber: 12.4 Consensus size: 27
46755737 GGGGCAAAAT
* * * *
46755747 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46755773 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46755800 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46755827 GTATTTCGATAATTCTACCCCACAGGAGTATTTC
1 G------G-TAATTCTACCCTACAGGGGTATTTC
* *
46755861 GATAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
46755888 GGTAATTCTACCCTACAGGGCTACTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46755915 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
46755942 GATAATTCTACCCCACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46755969 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46755996 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46756023 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
46756050 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46756077 GGTAATTCTA
1 GGTAATTCTA
46756087 ATGTTTTTTT
Statistics
Matches: 278, Mismatches: 28, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
26 14 0.05
27 239 0.86
33 1 0.00
34 24 0.09
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:46756599 original size:27 final size:27
Alignment explanation
Indices: 46756569--46756845 Score: 279
Period size: 27 Copynumber: 10.2 Consensus size: 27
46756559 ATATTAAGTA
*
46756569 ATTTTGGTAATTCTACCCTACAGGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
* *
46756596 ATTTTGGTAATTCTACCTTACAGAGGGGT
1 ATTTCGGTAATTCTACCCTAC--AGGGGT
* *
46756625 ATTGCGATAATTCTACCCTACAGGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
* *
46756652 ATTGCGATAATTCTACCCTACAGGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
*
46756679 ATTTCAGTAATTCTACCCTACAGGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
* *
46756706 ATTGCGATAATTCTACCCTACAGGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
* *
46756733 ATTTCGGTAATTATACCCTATAGGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
* * ** **
46756760 ATTTCAGTAATTTTA-CAAACTAGGGCA
1 ATTTCGGTAATTCTACCCTAC-AGGGGT
* * **
46756787 ATTTTGGTAATTTTA-CAAACTAGGGGT
1 ATTTCGGTAATTCTACCCTAC-AGGGGT
* * *
46756814 ATTTTGGTAATTCTATCCTACAAGGGT
1 ATTTCGGTAATTCTACCCTACAGGGGT
46756841 ATTTC
1 ATTTC
46756846 AGAAATTTCA
Statistics
Matches: 215, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 187 0.87
28 3 0.01
29 23 0.11
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTTCGGTAATTCTACCCTACAGGGGT
Found at i:46756744 original size:81 final size:82
Alignment explanation
Indices: 46756569--46756771 Score: 318
Period size: 81 Copynumber: 2.5 Consensus size: 82
46756559 ATATTAAGTA
* ** *
46756569 ATTTTGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCTTACAGAGGGGTATTGCGATA
1 ATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-AGGGGTATTGCGATA
46756634 ATTCTACCCTACAGGGGT
65 ATTCTACCCTACAGGGGT
* *
46756652 ATTGCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGGGTATTGCGATAA
1 ATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGGTATTGCGATAA
46756716 TTCTACCCTACAGGGGT
66 TTCTACCCTACAGGGGT
* *
46756733 ATTTCGGTAATTATACCCTATAGGGGTATTTCAGTAATT
1 ATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
46756772 TTACAAACTA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 68 0.62
83 42 0.38
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (82 bp):
ATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGGTATTGCGATAA
TTCTACCCTACAGGGGT
Found at i:46756893 original size:27 final size:26
Alignment explanation
Indices: 46756861--46757031 Score: 128
Period size: 27 Copynumber: 6.4 Consensus size: 26
46756851 TTTCACAATC
*
46756861 AAGGGTAAAACGGTCATTTTGTAAACT
1 AAGGGTAAAACGGTAATTTTGTAAA-T
*
46756888 AAGGGTAAAATGGTAATTTTGTAAAT
1 AAGGGTAAAACGGTAATTTTGTAAAT
*
46756914 AGAGGGTAAAACGGTAATTCTGTAAAT
1 A-AGGGTAAAACGGTAATTTTGTAAAT
* * * *
46756941 CGAGGGTAAAATGGTAATTCTATAAAT
1 -AAGGGTAAAACGGTAATTTTGTAAAT
* * * *
46756968 -TGAGGTAAAATGGGAATGTTGTAAAT
1 AAG-GGTAAAACGGTAATTTTGTAAAT
* * * * *
46756994 CGAGGGTGAAATGGTAATTCTATAAAT
1 -AAGGGTAAAACGGTAATTTTGTAAAT
*
46757021 CGAGGGTAAAA
1 -AAGGGTAAAA
46757032 TGGAATTCTA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.17
27 97 0.81
28 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (26 bp):
AAGGGTAAAACGGTAATTTTGTAAAT
Found at i:46756927 original size:54 final size:54
Alignment explanation
Indices: 46756862--46757031 Score: 218
Period size: 54 Copynumber: 3.2 Consensus size: 54
46756852 TTCACAATCA
* * * *
46756862 AGGGTAAAACGGTCATTTTGTAAA-CTAAGGGTAAAATGGTAATTTTGTAAATAG
1 AGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATAG
* *
46756916 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATAG
* * * * *
46756970 A-GGTAAAATGGGAATGTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATAG
46757023 AGGGTAAAA
1 AGGGTAAAA
46757032 TGGAATTCTA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
53 47 0.46
54 54 0.53
55 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATAG
Found at i:46756976 original size:80 final size:79
Alignment explanation
Indices: 46756891--46757051 Score: 241
Period size: 80 Copynumber: 2.0 Consensus size: 79
46756881 GTAAACTAAG
* * *
46756891 GGTAAAATGGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGT
1 GGTAAAATGGGAATGTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGG-
* *
46756956 AATTCTATAAATTGA
65 AATTCTACAAATCGA
* * *
46756971 GGTAAAATGGGAATGTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGGGTAAAATGGA
1 GGTAAAATGGGAATGTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGA
46757036 ATTCTACAAATCGA
66 ATTCTACAAATCGA
46757050 GG
1 GG
46757052 GCATTTCAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 15 0.21
80 58 0.79
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (79 bp):
GGTAAAATGGGAATGTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGA
ATTCTACAAATCGA
Found at i:46756998 original size:53 final size:54
Alignment explanation
Indices: 46756889--46757052 Score: 217
Period size: 53 Copynumber: 3.1 Consensus size: 54
46756879 TTGTAAACTA
* * * *
46756889 AGGGTAAAATGGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATAGAGGGTAAAATGGGAATTCTGTAAATCG
*
46756943 AGGGTAAAATGGTAATTCTATAAATTGA-GGTAAAATGGGAATGT-TGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATAGAGGGTAAAATGGGAAT-TCTGTAAATCG
* * **
46756996 AGGGTGAAATGGTAATTCTATAAATCGAGGGTAAAAT-GGAATTCTACAAATCG
1 AGGGTAAAATGGTAATTCTATAAATAGAGGGTAAAATGGGAATTCTGTAAATCG
46757049 AGGG
1 AGGG
46757053 CATTTCAGTA
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
52 1 0.01
53 63 0.64
54 34 0.35
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.28
Consensus pattern (54 bp):
AGGGTAAAATGGTAATTCTATAAATAGAGGGTAAAATGGGAATTCTGTAAATCG
Found at i:46757032 original size:27 final size:27
Alignment explanation
Indices: 46756889--46757052 Score: 208
Period size: 27 Copynumber: 6.1 Consensus size: 27
46756879 TTGTAAACTA
* * *
46756889 AGGGTAAAATGGTAATTTTGTAAATAG
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
46756916 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
46756943 AGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
46756970 A-GGTAAAATGGGAATGT-TGTAAATCG
1 AGGGTAAAATGGTAAT-TCTATAAATCG
*
46756996 AGGGTGAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
46757023 AGGGTAAAATGG-AATTCTACAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
46757049 AGGG
1 AGGG
46757053 CATTTCAGTA
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 39 0.32
27 81 0.68
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.28
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTATAAATCG
Found at i:46757070 original size:80 final size:80
Alignment explanation
Indices: 46756889--46757072 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 80
46756879 TTGTAAACTA
* *
46756889 AGGGTAAAATGGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGG-AAAATAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* *
46756954 GTAATTCTATAAATTG
65 GTAATTCTACAAATCG
* * * * * * *
46756970 AGGTAAAATGGGAATGTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGGGTAAAATGG
1 AGGGAAAATAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGG
46757035 -AATTCTACAAATCG
66 TAATTCTACAAATCG
* **
46757049 AGGGCATTTCAGTAATTTTGTAAA
1 AGGGAAAAT-AGTAATTTTGTAAA
46757073 CCAATGGTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 17 0.20
80 66 0.77
81 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (80 bp):
AGGGAAAATAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGG
TAATTCTACAAATCG
Found at i:46757084 original size:27 final size:27
Alignment explanation
Indices: 46757035--46757363 Score: 220
Period size: 27 Copynumber: 12.2 Consensus size: 27
46757025 GGTAAAATGG
* * * *
46757035 AATTCTACAAATCGAGGGCATTTCAGT
1 AATTTTACAAACCAAGGGTATTTCAGT
** *
46757062 AATTTTGTAAACCAATGGTATTTCTA-T
1 AATTTTACAAACCAAGGGTATTTC-AGT
* * *
46757089 AATTTTTAGAAAGTCAAGGGTATTTCTGT
1 AA-TTTTACAAA-CCAAGGGTATTTCAGT
* * * **
46757118 AATTTTATAAATCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTCAGT
***
46757145 AATTTTACAAATTGAGGGTATTTCAGT
1 AATTTTACAAACCAAGGGTATTTCAGT
* *
46757172 AATTTCACAAACC-AGTGGTATTT-TGAT
1 AATTTTACAAACCAAG-GGTATTTCAG-T
**
46757199 AATTTTACAAACCAAGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTCAGT
**
46757226 AATTTTACAAACCAAGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTCAGT
* * *
46757253 AATTTTATAAACAAAGGGTATTTTAGT
1 AATTTTACAAACCAAGGGTATTTCAGT
* * * *
46757280 AATTTTAC-AATCGACGGTATTTCGGT
1 AATTTTACAAACCAAGGGTATTTCAGT
* ** *
46757306 AATTTTATAAACCGGGGGTACTTT-GGT
1 AATTTTACAAACCAAGGGTA-TTTCAGT
***
46757333 AATTTTAC-AACTGGGGGTATTTCAGT
1 AATTTTACAAACCAAGGGTATTTCAGT
46757359 AATTT
1 AATTT
46757364 GGTAAACTAA
Statistics
Matches: 246, Mismatches: 45, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 39 0.16
27 168 0.68
28 22 0.09
29 14 0.06
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AATTTTACAAACCAAGGGTATTTCAGT
Found at i:46757192 original size:54 final size:54
Alignment explanation
Indices: 46757035--46757312 Score: 258
Period size: 54 Copynumber: 5.1 Consensus size: 54
46757025 GGTAAAATGG
* * * ** * *
46757035 AATTCTACAAATCGAGGGCATTTCAGTAATTTTGTAAACCAATGGTATTTCT-AT
1 AATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTATTT-TGGT
* * * * *
46757089 AATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTATAAATCAGGGGTATTTTGGT
1 AA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTATTTTGGT
** * *
46757145 AATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGAT
1 AATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTATTTTGGT
* **
46757199 AATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTGGT
1 AATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACC-AGTGGTATTTTGGT
* * * * * *
46757253 AATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAATCGA-CGGTATTTCGGT
1 AATTTTACAAATC-AAGGGTATTTCAGTAATTTTACAAACCAGTGGTATTTTGGT
46757306 AATTTTA
1 AATTTTA
46757313 TAAACCGGGG
Statistics
Matches: 187, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
53 19 0.10
54 115 0.61
55 18 0.10
56 35 0.19
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (54 bp):
AATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTATTTTGGT
Found at i:46757371 original size:27 final size:25
Alignment explanation
Indices: 46757295--46757363 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 25
46757285 TACAATCGAC
*
46757295 GGTATTTCGGTAATTTTATAAACCGGG
1 GGTATTTCGGTAA-TTT-TAAACTGGG
46757322 GGTACTTT-GGTAATTTTACAACTGGG
1 GGTA-TTTCGGTAATTTTA-AACTGGG
*
46757348 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
46757364 GGTAAACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 5 0.14
26 20 0.54
27 9 0.24
28 3 0.08
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.41
Consensus pattern (25 bp):
GGTATTTCGGTAATTTTAAACTGGG
Found at i:46760411 original size:24 final size:24
Alignment explanation
Indices: 46760378--46760423 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46760368 TATGATATGG
*
46760378 CCATGTTTGGTTGAGAAAATGTGA
1 CCATGATTGGTTGAGAAAATGTGA
*
46760402 CCATGATTGGTTGAGAACATGT
1 CCATGATTGGTTGAGAAAATGT
46760424 TTGATATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (24 bp):
CCATGATTGGTTGAGAAAATGTGA
Found at i:46767359 original size:46 final size:46
Alignment explanation
Indices: 46767309--46767481 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
46767299 TGGTTGAGCA
46767309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46767355 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
46767400 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46767448 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46767482 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46767465 original size:93 final size:93
Alignment explanation
Indices: 46767306--46767476 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
46767296 GGATGGTTGA
* *
46767306 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46767371 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
46767399 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46767464 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46767477 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:46772445 original size:40 final size:40
Alignment explanation
Indices: 46772369--46772481 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
46772359 CCAGCATGAT
* * * *
46772369 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
** * *
46772409 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
*
46772449 TGCTCCTCCGGGACTTAGCCCGGATATATCACT
1 TGCT-CTTCGGGACTTAGCCCGGATATATCACT
46772482 CTCAATTCTC
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 36 0.60
41 24 0.40
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
Found at i:46792049 original size:54 final size:54
Alignment explanation
Indices: 46791926--46792052 Score: 227
Period size: 54 Copynumber: 2.4 Consensus size: 54
46791916 CCCTAAACGA
* *
46791926 TAAAATGACTATTTTACCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGG
46791980 TAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGG
*
46792034 TAAGATGACTGTTTTGCCC
1 TAAAATGACTGTTTTGCCC
46792053 CTATGTGCAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGG
Found at i:46792057 original size:27 final size:27
Alignment explanation
Indices: 46791926--46792059 Score: 205
Period size: 27 Copynumber: 5.0 Consensus size: 27
46791916 CCCTAAACGA
* *
46791926 TAAAATGACTATTTTACCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
46791953 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
46791980 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
46792007 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
46792034 TAAGATGACTGTTTTGCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
46792060 CAGCATATAT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:46795696 original size:86 final size:86
Alignment explanation
Indices: 46795527--46795684 Score: 214
Period size: 86 Copynumber: 1.8 Consensus size: 86
46795517 TGAGATTACA
* * * *
46795527 TGTAAGACCCTGTCTGGGACATTGGCATTATATTGTGGTTATGTGTAAGACCATGTCAGGGACAT
1 TGTAAGACCATGTCTAGGACATTGGCATTATAATGTGATTATGTGTAAGACCATGTCAGGGACAT
46795592 TGGCATCATTATACGATTATG
66 TGGCATCATTATACGATTATG
* *
46795613 TGTAAGACCATGTCTAGGACATTGGCATCGT-TAAT-TGATT-TCGTGTAAGACCCTGTCTGGGA
1 TGTAAGACCATGTCTAGGACATTGGCAT--TATAATGTGATTAT-GTGTAAGACCATGTCAGGGA
46795675 CATTGGCATC
63 CATTGGCATC
46795685 GATATCTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 1 0.02
86 58 0.92
87 3 0.05
88 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (86 bp):
TGTAAGACCATGTCTAGGACATTGGCATTATAATGTGATTATGTGTAAGACCATGTCAGGGACAT
TGGCATCATTATACGATTATG
Found at i:46795717 original size:43 final size:43
Alignment explanation
Indices: 46795520--46795709 Score: 190
Period size: 43 Copynumber: 4.4 Consensus size: 43
46795510 ACCGAGATGA
* * * *
46795520 GATTACATGTAAGACCCTGTCTGGGACATTGGCAT-TATATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATA-TCT
* * *
46795563 GGTTATGTGTAAGACCATGTCAGGGACATTGGCATC-ATTATAC-
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGA-TAT-CT
* * *
46795606 GATTATGTGTAAGACCATGTCTAGGACATTGGCATCGTTAAT-T
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGAT-ATCT
* *
46795649 GATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATATCT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATCT
* *
46795692 GATTACCTCTAAGACCAT
1 GATTACGTGTAAGACCAT
46795710 ATTTGGGATA
Statistics
Matches: 121, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.02
43 115 0.95
44 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATCT
Found at i:46802056 original size:13 final size:13
Alignment explanation
Indices: 46802038--46802066 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46802028 TGAATTAATG
46802038 ATTAAATAAGGAA
1 ATTAAATAAGGAA
46802051 ATTAAATAAGGAA
1 ATTAAATAAGGAA
46802064 ATT
1 ATT
46802067 TTGTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (13 bp):
ATTAAATAAGGAA
Found at i:46802412 original size:43 final size:43
Alignment explanation
Indices: 46802364--46802511 Score: 133
Period size: 43 Copynumber: 3.4 Consensus size: 43
46802354 AAATTACATA
* * * *
46802364 TAAGACCATGTCTGGGACATTTCCAATGTATTGT-C-ATTATGTG
1 TAAGACCATGTCTGGGACATTGCC-AT-CATTATACGATTACGTG
* *
46802407 TAAGACCATGTCTGTGACATTGGCATCATTATACGATTACGTG
1 TAAGACCATGTCTGGGACATTGCCATCATTATACGATTACGTG
* *
46802450 TAAGACCATGTTTGGGACATTAG-CATCATTA-ATCGATTTCGTG
1 TAAGACCATGTCTGGGACATT-GCCATCATTATA-CGATTACGTG
* * *
46802493 TAAGTCCCTGTCTAGGACA
1 TAAGACCATGTCTGGGACA
46802512 GTGGCATCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.05
42 4 0.05
43 79 0.90
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGCCATCATTATACGATTACGTG
Found at i:46802519 original size:43 final size:42
Alignment explanation
Indices: 46802399--46802519 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 42
46802389 ATGTATTGTC
*
46802399 ATTATGTGTAAGACCATGTCTGTGACATTGGCATCATTATACG
1 ATTACGTGTAAGACCATGTCTG-GACATTGGCATCATTATACG
* *
46802442 ATTACGTGTAAGACCATGTTTGGGACATTAGCATCATTA-ATCG
1 ATTACGTGTAAGACCATGTCT-GGACATTGGCATCATTATA-CG
* * * *
46802485 ATTTCGTGTAAGTCCCTGTCTAGGACAGTGGCATC
1 ATTACGTGTAAGACCATGTCT-GGACATTGGCATC
46802520 GATATGTGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 64 0.97
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
ATTACGTGTAAGACCATGTCTGGACATTGGCATCATTATACG
Found at i:46805743 original size:22 final size:23
Alignment explanation
Indices: 46805713--46805824 Score: 101
Period size: 23 Copynumber: 5.0 Consensus size: 23
46805703 AGAGTTTATC
* *
46805713 GTTTCAGCTCATATGGGCTTACT
1 GTTTCAGCTCATATGAGCTTACA
*
46805736 GTTT-AGCTCA-ATAGAGCTTACC
1 GTTTCAGCTCATAT-GAGCTTACA
*
46805758 GTTTCAGCTCGTATGAGCTTACA
1 GTTTCAGCTCATATGAGCTTACA
46805781 G-TTCAGCTCGATA-GAGCTTATCA
1 GTTTCAGCTC-ATATGAGCTTA-CA
*
46805804 -TTTTAGCTCA-ATAGAGCTTAC
1 GTTTCAGCTCATAT-GAGCTTAC
46805825 TATTCATCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.04
22 34 0.45
23 36 0.48
24 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (23 bp):
GTTTCAGCTCATATGAGCTTACA
Found at i:46805750 original size:45 final size:45
Alignment explanation
Indices: 46805701--46805824 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
46805691 GTTCATCTTG
* * * *
46805701 ATAGAGTTTATCGTTTCAGCTCATATGGGCTTACTGTTTAGCTCA
1 ATAGAGCTTATCGTTTCAGCTCATATGAGCTTACAGTTCAGCTCA
* * *
46805746 ATAGAGCTTACCGTTTCAGCTCGTATGAGCTTACAGTTCAGCTCG
1 ATAGAGCTTATCGTTTCAGCTCATATGAGCTTACAGTTCAGCTCA
* *
46805791 ATAGAGCTTATCATTTTAGCTCA-ATAGAGCTTAC
1 ATAGAGCTTATCGTTTCAGCTCATAT-GAGCTTAC
46805825 TATTCATCAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
44 2 0.03
45 65 0.97
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (45 bp):
ATAGAGCTTATCGTTTCAGCTCATATGAGCTTACAGTTCAGCTCA
Found at i:46823178 original size:40 final size:40
Alignment explanation
Indices: 46823060--46823197 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
46823050 TGGATGATAA
* * * *
46823060 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
46823100 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
46823140 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
46823180 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46823198 TACTTGGCTT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.17
40 72 0.83
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:46825266 original size:28 final size:29
Alignment explanation
Indices: 46825234--46825294 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
46825224 CACATACTTG
* *
46825234 TATATGGCCCACTAGGCCC-AATTACATT
1 TATATGGCCCACTAGACCCAAATCACATT
*
46825262 TATATGGCCCATTAGACCCAAATCACATT
1 TATATGGCCCACTAGACCCAAATCACATT
46825291 TATA
1 TATA
46825295 ATCATACTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (29 bp):
TATATGGCCCACTAGACCCAAATCACATT
Found at i:46825512 original size:8 final size:8
Alignment explanation
Indices: 46825499--46825541 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
46825489 GTAGTCAAAC
46825499 TTTTGGCT
1 TTTTGGCT
*
46825507 TTTTGGCA
1 TTTTGGCT
46825515 TTTTGGCT
1 TTTTGGCT
* *
46825523 TTTCGGCA
1 TTTTGGCT
*
46825531 TTTCGGCT
1 TTTTGGCT
46825539 TTT
1 TTT
46825542 GCTGATCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.05, C:0.16, G:0.23, T:0.56
Consensus pattern (8 bp):
TTTTGGCT
Found at i:46825520 original size:16 final size:16
Alignment explanation
Indices: 46825499--46825541 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
46825489 GTAGTCAAAC
*
46825499 TTTTGGCTTTTTGGCA
1 TTTTGGCTTTTCGGCA
46825515 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
46825531 TTTCGGCTTTT
1 TTTTGGCTTTT
46825542 GCTGATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.05, C:0.16, G:0.23, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:46841610 original size:40 final size:40
Alignment explanation
Indices: 46841566--46841827 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
46841556 GCTCCTCGTT
* *
46841566 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
46841606 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46841646 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46841685 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46841724 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
46841763 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
46841804 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46841828 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:46851623 original size:30 final size:30
Alignment explanation
Indices: 46851589--46851649 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
46851579 TTCCCGAGCC
46851589 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
46851619 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
46851649 T
1 T
46851650 GAATTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:46852465 original size:64 final size:64
Alignment explanation
Indices: 46852384--46852567 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
46852374 AGACATTATG
* * * *
46852384 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACTATGTAGACAAGAGAGCAACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCAACGAGATAA
* * * * * *
46852448 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCAACGAGAT
46852513 AA
63 AA
* * *
46852515 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
46852568 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 25 0.26
66 21 0.22
67 29 0.30
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCAACGAGATAA
Found at i:46852833 original size:23 final size:24
Alignment explanation
Indices: 46852807--46852856 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
46852797 CCTATACTTG
46852807 TGATGTATGAAATGTA-GTGAAAA
1 TGATGTATGAAATGTATGTGAAAA
* * * *
46852830 TGATTTGTGATATGTATGTTAAAA
1 TGATGTATGAAATGTATGTGAAAA
46852854 TGA
1 TGA
46852857 GGTTAATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (24 bp):
TGATGTATGAAATGTATGTGAAAA
Found at i:46861335 original size:15 final size:15
Alignment explanation
Indices: 46861312--46861342 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46861302 TCAAAAATTC
46861312 CAATACAAAACATAT
1 CAATACAAAACATAT
*
46861327 CAATCCAAAACATAT
1 CAATACAAAACATAT
46861342 C
1 C
46861343 TTTAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:46869014 original size:22 final size:22
Alignment explanation
Indices: 46868987--46869031 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
46868977 AAATTGGACA
46868987 TGGATGGAATTTTTGGAAAGTT
1 TGGATGGAATTTTTGGAAAGTT
*
46869009 TGGATGGCATTTTTGGAAAGTT
1 TGGATGGAATTTTTGGAAAGTT
46869031 T
1 T
46869032 AGTAGTAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.42
Consensus pattern (22 bp):
TGGATGGAATTTTTGGAAAGTT
Found at i:46886818 original size:13 final size:13
Alignment explanation
Indices: 46886800--46886828 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46886790 GAAGGGCAAG
46886800 TTAAGTCCACGTT
1 TTAAGTCCACGTT
46886813 TTAAGTCCACGTT
1 TTAAGTCCACGTT
46886826 TTA
1 TTA
46886829 TTGGACCGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (13 bp):
TTAAGTCCACGTT
Found at i:46892671 original size:34 final size:33
Alignment explanation
Indices: 46892590--46892696 Score: 106
Period size: 34 Copynumber: 3.2 Consensus size: 33
46892580 GATTGCATCT
* * * *
46892590 ATACTGATACTGTAATGGGCTTAGGCCCCACTA
1 ATACTGTTACTGAAATGGGCTTAGGCCCAACTG
*
46892623 ATATTGTTACTGAAATGGGCTTAGGCCCAAACTG
1 ATACTGTTACTGAAATGGGCTTAGGCCC-AACTG
* * * *
46892657 CTACTGTTATTGAAATAGGCTAAGGCCCTAACTG
1 ATACTGTTACTGAAATGGGCTTAGGCCC-AACTG
*
46892691 AGACTG
1 ATACTG
46892697 AAAGGGCTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
33 25 0.42
34 35 0.58
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (33 bp):
ATACTGTTACTGAAATGGGCTTAGGCCCAACTG
Found at i:46895888 original size:34 final size:34
Alignment explanation
Indices: 46895840--46895917 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
46895830 GTTAGGCCCC
*
46895840 ACTGATACTGTTACTAAAATGGGCTCAGGCCCAA
1 ACTGATACTGTTACTAAAATGGGCTAAGGCCCAA
* * *
46895874 ACTGCTACTGTTACTGAAATGGGCTAAGGCCCTA
1 ACTGATACTGTTACTAAAATGGGCTAAGGCCCAA
*
46895908 ACTGAGACTG
1 ACTGATACTG
46895918 AAAGGGCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (34 bp):
ACTGATACTGTTACTAAAATGGGCTAAGGCCCAA
Found at i:46918875 original size:40 final size:40
Alignment explanation
Indices: 46918801--46919105 Score: 409
Period size: 40 Copynumber: 7.6 Consensus size: 40
46918791 AACCCAAGTA
* *
46918801 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
46918840 CCTTCGGGTCTTAGCCCTGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
46918880 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
46918920 CCTTCGGGACTTAGCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
46918960 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAACTT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
46919000 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
46919039 CCTTCCTTCGGGACTTCGCCCGGATATAATCACTAGCACAAATG
1 ----CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
46919083 CCTTCGGGACTTAGCCAGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
46919106 CATTCGAATA
Statistics
Matches: 233, Mismatches: 26, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
39 13 0.06
40 183 0.79
41 1 0.00
43 33 0.14
44 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:46923311 original size:43 final size:43
Alignment explanation
Indices: 46923201--46923314 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
46923191 GTCCCTGGCG
* * * * **
46923201 TGGTCTTACATGTAATCTCATATCAATGCCACTGTCCCAGGTA
1 TGGTCTTACACGTAATCACATATCGATGCCACTATCCCAGACA
*
46923244 GGGTCTTACACGTAATCACATATCGATGCCAAC-ATCCCAGACA
1 TGGTCTTACACGTAATCACATATCGATGCC-ACTATCCCAGACA
46923287 TGGTCTTACACGTAATCACATATCGATG
1 TGGTCTTACACGTAATCACATATCGATG
46923315 TCCCATATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 60 0.97
44 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACACGTAATCACATATCGATGCCACTATCCCAGACA
Found at i:46923651 original size:67 final size:67
Alignment explanation
Indices: 46923580--46923714 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
46923570 CGTCAAACAT
46923580 AAATTATTTTTCATTACTGAATGCCAATTCGTAATTTGCTTCTAATTATTACAATTATTTATAAA
1 AAATTATTTTTCATTACTGAATGCCAATTCGTAATTTGCTTCTAATTATTACAATTATTTATAAA
46923645 TC
66 TC
*
46923647 AAATTATTTTTCATTACTGAATGCCGATTCGTAATTTGCTTCTAATTATTACAATTATTTATAAA
1 AAATTATTTTTCATTACTGAATGCCAATTCGTAATTTGCTTCTAATTATTACAATTATTTATAAA
46923712 TC
66 TC
46923714 A
1 A
46923715 CATATATTGA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (67 bp):
AAATTATTTTTCATTACTGAATGCCAATTCGTAATTTGCTTCTAATTATTACAATTATTTATAAA
TC
Found at i:46929022 original size:27 final size:27
Alignment explanation
Indices: 46928992--46929169 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46928982 ATATTGAGTC
* * * *
46928992 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46929019 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46929046 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46929074 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46929101 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46929128 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46929155 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46929170 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46929131 original size:82 final size:81
Alignment explanation
Indices: 46929013--46929168 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46929003 TGCTATATAA
* *
46929013 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46929078 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46929095 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46929159 CACTTAGTGC
65 CACTTAGTGC
46929169 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46937499 original size:27 final size:27
Alignment explanation
Indices: 46937469--46937646 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46937459 ATATTGAGTC
* * * *
46937469 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46937496 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46937523 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46937551 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46937578 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46937605 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46937632 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46937647 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46937608 original size:82 final size:81
Alignment explanation
Indices: 46937490--46937645 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46937480 TGCTATATAA
* *
46937490 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46937555 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46937572 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46937636 CACTTAGTGC
65 CACTTAGTGC
46937646 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46941117 original size:43 final size:43
Alignment explanation
Indices: 46941034--46941291 Score: 238
Period size: 43 Copynumber: 6.1 Consensus size: 43
46941024 ATTTTGTATA
* * ** *
46941034 ATGCCAACGTCCCTGATGTGGTTTTACATGTAATCTCATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* * *
46941077 ATGCC-ACTGTCCCAGATAG-GGTCTTACTCTTAAACACATATCG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACATAATCACATATCG
* * * * *
46941120 ATGCCAACATCCCAGATGTAGTCTTACACCTAATCATATATAG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* *
46941163 ATGCCAACGTCCCTGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* * * ** *
46941206 ATGCCAACATCCCAGACGTTGTCTTACATGTAAT---ATATAG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* * **
46941246 ATGCCAATGTCCCAAATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
46941289 ATG
1 ATG
46941292 TCTCATATAC
Statistics
Matches: 175, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
40 34 0.19
42 3 0.02
43 135 0.77
44 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
Found at i:46941186 original size:86 final size:83
Alignment explanation
Indices: 46941096--46941291 Score: 241
Period size: 83 Copynumber: 2.3 Consensus size: 83
46941086 TCCCAGATAG
* * * *
46941096 GGTCTTACTCTTAAACACATATCGATGCCAACATCCCAGATGTAGTCTTACACCTAATCATATAT
1 GGTCTTACTCATAATCACATATCGATGCCAACATCCCAGACGTAGTCTTACA--T-ATAATATAT
**
46941161 AGATGCCAACGTCCCTGACGT
63 AGATGCCAACGTCCCAAACGT
* * *
46941182 GGTCTTACACATAATCACATATCGATGCCAACATCCCAGACGTTGTCTTACATGTAATATATAGA
1 GGTCTTACTCATAATCACATATCGATGCCAACATCCCAGACGTAGTCTTACATATAATATATAGA
* *
46941247 TGCCAATGTCCCAAATGT
66 TGCCAACGTCCCAAACGT
*
46941265 GGTCTTACAT-GTAATCACATATCGATG
1 GGTCTTAC-TCATAATCACATATCGATG
46941292 TCTCATATAC
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
83 48 0.50
84 1 0.01
86 47 0.49
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (83 bp):
GGTCTTACTCATAATCACATATCGATGCCAACATCCCAGACGTAGTCTTACATATAATATATAGA
TGCCAACGTCCCAAACGT
Found at i:46947569 original size:40 final size:40
Alignment explanation
Indices: 46947469--46947733 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
46947459 GCTCCTCGTT
* * * *
46947469 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
46947509 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
46947548 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
46947588 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
46947628 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
46947668 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
46947709 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
46947734 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:46947693 original size:80 final size:80
Alignment explanation
Indices: 46947436--46947733 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
46947426 AAATCACGTA
* ** * * *
46947436 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
46947498 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
46947514 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
46947577 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
46947594 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
46947658 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
46947674 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
46947734 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:46947742 original size:41 final size:41
Alignment explanation
Indices: 46947665--46947742 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46947655 TTTGTATCTC
* * *
46947665 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46947706 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46947743 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:46954182 original size:54 final size:54
Alignment explanation
Indices: 46954111--46954260 Score: 230
Period size: 54 Copynumber: 2.8 Consensus size: 54
46954101 TCCTCAAGCA
* *
46954111 ATGCCATAGTCCCAGACTAGGTCTTACACTATGTGGTCTTCGT-ATCCCCATATG
1 ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTC-TCATCCCCATATG
**
46954165 ATGCCATAGTATTAGACTAGGTCTTACACTATATGGTCTTCTCATCCCCATATG
1 ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTCTCATCCCCATATG
* *
46954219 ATGCCATAGTCCCAGACTAGGTCTTACACTATACGGTCTTCT
1 ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTCT
46954261 TGCCATGGCC
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (54 bp):
ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTCTCATCCCCATATG
Found at i:46957764 original size:42 final size:42
Alignment explanation
Indices: 46957702--46957807 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
46957692 GAGTGCCAAA
* * *
46957702 GCCATATCCCAGACATGGTCTTACATGGGTCCACATATCTAT
1 GCCATATCCCAGACATGGTCTTACACGGGACCACATATCGAT
** * *
46957744 GTTATATCCCAGACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATATCCCAGACATGGTCTTACACGGGACCACATATCGAT
*
46957786 GCCAT-GCCCAGACATGGTCTTA
1 GCCATATCCCAGACATGGTCTTA
46957808 TACGAAATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 16 0.30
42 38 0.70
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACACGGGACCACATATCGAT
Found at i:46959713 original size:48 final size:48
Alignment explanation
Indices: 46959580--46959851 Score: 208
Period size: 48 Copynumber: 5.6 Consensus size: 48
46959570 CCTCATATCT
* * * * * * *
46959580 ATGCCATGTCCCAGACATGGTATTATAC-GAAATGACTTAACGATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAG-CATCACATATCGATGCCG
* * ** * * * * *
46959628 AAGCCATATCCTTGATATGGTCTTATACAGGATCACATATTGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGCATCACATATCGATGCCG
* ** *
46959676 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAAAACTG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGCATCACATATCGATGCCG
* * * **
46959724 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATCTCAGATGTTG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGCATCACATATC-GATGCCG
* * * *
46959773 ATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATCTCGAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGCATCACATATCG-ATGCCG
*
46959822 ATACCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
46959852 GATCTCATTA
Statistics
Matches: 180, Mismatches: 38, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
48 104 0.58
49 76 0.42
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGCATCACATATCGATGCCG
Found at i:46959794 original size:49 final size:49
Alignment explanation
Indices: 46959675--46959859 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
46959665 TATTGGTGCC
* * * **
46959675 GATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCA-AAACT
1 GATGCCATGTCCCAGACATGGTCTTACACT-GGATCTCATCTCAGATGCT
* *
46959723 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAGATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATCTCAGATGCT
* *
46959772 GATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATCTC-GAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATCTCAG-ATGCT
* *
46959821 GATACCATGTCCCAGACATGGTCTTACACAGGATCTCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCAT
46959860 TAAACATGAT
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.01
48 38 0.31
49 82 0.68
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATCTCAGATGCT
Found at i:46964395 original size:269 final size:268
Alignment explanation
Indices: 46963911--46964447 Score: 1011
Period size: 269 Copynumber: 2.0 Consensus size: 268
46963901 CAATACGCTC
46963911 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
1 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
46963976 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTCAAATTCAATATCTTTTCTTTTC
66 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTCAAATTCAATATCTTTTCTTTTC
46964041 AAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTCTCACTTT
131 AAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTCTCACTTT
46964106 CTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATACA
196 CTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATACA
46964171 AAGGTGTA
261 AAGGTGTA
* * *
46964179 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTTCCTTTTCTACCGAATCGAAGCACTT
1 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
*
46964244 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCGATCTCAAAATTCAATATCTTTTCTTTT
66 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTC-AAATTCAATATCTTTTCTTTT
* *
46964309 CAAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTCTCTCGGATCACTTTCACTT
130 CAAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTCTCACTT
46964374 TCTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATAC
195 TCTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATAC
46964439 AAAGGTGTA
260 AAAGGTGTA
46964448 CGACATTTGT
Statistics
Matches: 262, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
268 104 0.40
269 158 0.60
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (268 bp):
AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTCAAATTCAATATCTTTTCTTTTC
AAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTCTCACTTT
CTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATACA
AAGGTGTA
Found at i:46972639 original size:39 final size:39
Alignment explanation
Indices: 46972553--46972746 Score: 191
Period size: 39 Copynumber: 5.0 Consensus size: 39
46972543 ACTTGAAACC
** *
46972553 AATTACCAGCACAAGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACAAGCCTGCGGGACCTTAAGCCCGGATAT
* * * *
46972592 AATACCAGCTCGAAGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-AAGCCTGCGGGACCTTAAGCCCGGATAT
* * *
46972631 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCAC-AAGCCTGCGGGACCTTAAGCCCGGATAT
*
46972670 AATTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACA-AGCCTGCGGGACCTTAAGCCCGGATAT
* *
46972709 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATA
1 AATTCCAGCACA-AGCCTGCGGGACCTTAAGCCCGGATA
46972747 CACATCAAAT
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
38 17 0.13
39 118 0.87
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (39 bp):
AATTCCAGCACAAGCCTGCGGGACCTTAAGCCCGGATAT
Found at i:46972671 original size:78 final size:78
Alignment explanation
Indices: 46972585--46972746 Score: 213
Period size: 78 Copynumber: 2.1 Consensus size: 78
46972575 GAATTTAAAC
* * * *
46972585 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGC
*
46972647 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
46972662 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCT
46972727 GCGGACCCTAAGT
66 GCGGACCCTAAGT
46972740 CCGGATA
1 CCGGATA
46972747 CACATCAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
77 8 0.11
78 66 0.89
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:46979741 original size:45 final size:45
Alignment explanation
Indices: 46979690--46979775 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
46979680 CCAAAACATG
* *
46979690 TGTCACATGTGTCACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
* * *
46979735 TGTCACATATATCATGAACTCGGACCACGACTCAATGAGTT
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTT
46979776 TAGATCACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:46984819 original size:40 final size:40
Alignment explanation
Indices: 46984771--46984976 Score: 369
Period size: 40 Copynumber: 5.2 Consensus size: 40
46984761 GGACTAAGAT
* *
46984771 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
46984811 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
46984851 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
46984891 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
46984931 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
46984970 CCGAAGG
1 CCGAAGG
46984977 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 15 0.09
40 147 0.91
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:46991504 original size:13 final size:13
Alignment explanation
Indices: 46991486--46991511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46991476 ATATTATAAT
46991486 TATTTTATGTTAA
1 TATTTTATGTTAA
46991499 TATTTTATGTTAA
1 TATTTTATGTTAA
46991512 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:46992933 original size:40 final size:40
Alignment explanation
Indices: 46992885--46993130 Score: 408
Period size: 40 Copynumber: 6.2 Consensus size: 40
46992875 GGACTAAGAT
46992885 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
46992925 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
46992965 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
46993005 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
46993045 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
46993085 CCGAAGGCATTTGTG-TGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCT-AG-TGACTATATCCGGGCTAAGTC
46993124 CCGAAGG
1 CCGAAGG
46993131 TACTTGGGTT
Statistics
Matches: 199, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:47003606 original size:19 final size:19
Alignment explanation
Indices: 47003582--47003625 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
47003572 AAAAGCTATG
*
47003582 TGTTATATAGATGAATTAC
1 TGTTATACAGATGAATTAC
* *
47003601 TGTTATACGGATGAGTTAC
1 TGTTATACAGATGAATTAC
47003620 TGTTAT
1 TGTTAT
47003626 CGAATGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (19 bp):
TGTTATACAGATGAATTAC
Found at i:47003644 original size:19 final size:19
Alignment explanation
Indices: 47003592--47003641 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
47003582 TGTTATATAG
*
47003592 ATGAATTACTGTTATACGG
1 ATGAATTACTGTTATACGA
*
47003611 ATGAGTTACTGTTAT-CGA
1 ATGAATTACTGTTATACGA
*
47003629 ATGAATTATTGTT
1 ATGAATTACTGTT
47003642 TATATGATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (19 bp):
ATGAATTACTGTTATACGA
Found at i:47009957 original size:104 final size:104
Alignment explanation
Indices: 47009777--47009983 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 104
47009767 AACTCCAGGA
47009777 AAGAAAAATGCCATCTGGGCAATAGTTGACAGACTGACTAAATCGGCTCATTTTATTCCGGTACG
1 AAGAAAAATGCCATCTGGGCAATAGTTGACAGACTGACTAAATCGGCTCATTTTATTCCGGTACG
47009842 TACAGATTATTCTCTTAATAAGTCGGCTGAATTGTATAG
66 TACAGATTATTCTCTTAATAAGTCGGCTGAATTGTATAG
*
47009881 AAGAAAAATGCCATCTGGGCAATAGTTGACAGACTGACTAAATCGGCTCATTTTATTCCGTTACG
1 AAGAAAAATGCCATCTGGGCAATAGTTGACAGACTGACTAAATCGGCTCATTTTATTCCGGTACG
47009946 TACAGATTATTCTCTTAATAAGTCGGCTGAATTGTATA
66 TACAGATTATTCTCTTAATAAGTCGGCTGAATTGTATA
47009984 TCCAAGAGAT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (104 bp):
AAGAAAAATGCCATCTGGGCAATAGTTGACAGACTGACTAAATCGGCTCATTTTATTCCGGTACG
TACAGATTATTCTCTTAATAAGTCGGCTGAATTGTATAG
Found at i:47012267 original size:46 final size:46
Alignment explanation
Indices: 47012217--47012388 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
47012207 TGGTTGAGCA
47012217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47012263 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47012308 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47012356 CCCCAGCTCATTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
47012389 TGGGGTGGGT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47012373 original size:93 final size:93
Alignment explanation
Indices: 47012214--47012384 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47012204 GGATGGTTGA
* * * *
47012214 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAACTCATTGAGT
47012279 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
47012307 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAACTCATTGAGT
47012372 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47012385 ACTTTGGGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:47013378 original size:38 final size:38
Alignment explanation
Indices: 47013336--47013449 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
47013326 TATATTTTTA
47013336 AGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAG
1 AGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAG
* ** * ** * *
47013374 AGAGATATCTGAT-TCGTAAAGA-TCATATT-T-T-TA-
1 AGAGAAAT-AAATCTTGTAATCATTGAAATTCTGTATAG
47013407 AGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAG
1 AGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAG
47013445 AGAGA
1 AGAGA
47013450 TATCTGATTC
Statistics
Matches: 53, Mismatches: 16, Indels: 14
0.64 0.19 0.17
Matches are distributed among these distances:
32 2 0.04
33 13 0.25
34 7 0.13
35 2 0.04
36 2 0.04
37 7 0.13
38 18 0.34
39 2 0.04
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (38 bp):
AGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAG
Found at i:47013404 original size:71 final size:71
Alignment explanation
Indices: 47013327--47013463 Score: 274
Period size: 71 Copynumber: 1.9 Consensus size: 71
47013317 CTTATTGAGT
47013327 ATATTTTTAAGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAGAGAGATATCTGATTCGTA
1 ATATTTTTAAGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAGAGAGATATCTGATTCGTA
47013392 AAGATC
66 AAGATC
47013398 ATATTTTTAAGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAGAGAGATATCTGATTCGTA
1 ATATTTTTAAGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAGAGAGATATCTGATTCGTA
47013463 A
66 A
47013464 TATACAGATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (71 bp):
ATATTTTTAAGAGAAATAAATCTTGTAATCATTGAAATTCTGTATAGAGAGATATCTGATTCGTA
AAGATC
Found at i:47013464 original size:38 final size:38
Alignment explanation
Indices: 47013351--47013464 Score: 112
Period size: 35 Copynumber: 3.1 Consensus size: 38
47013341 AATAAATCTT
47013351 GTAATCATTGAAATTCTGTATAGAGAGATATCTGATTC
1 GTAATCATTGAAATTCTGTATAGAGAGATATCTGATTC
** * * * * ** *
47013389 GTAAAGA-TCATATT-TTTA-AGAGAAATAAAT-CTT-
1 GTAATCATTGAAATTCTGTATAGAGAGATATCTGATTC
47013422 GTAATCATTGAAATTCTGTATAGAGAGATATCTGATTC
1 GTAATCATTGAAATTCTGTATAGAGAGATATCTGATTC
47013460 GTAAT
1 GTAAT
47013465 ATACAGATAT
Statistics
Matches: 53, Mismatches: 18, Indels: 10
0.65 0.22 0.12
Matches are distributed among these distances:
33 5 0.09
34 7 0.13
35 12 0.23
36 12 0.23
37 7 0.13
38 10 0.19
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.37
Consensus pattern (38 bp):
GTAATCATTGAAATTCTGTATAGAGAGATATCTGATTC
Done.