Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 168 of 193
Found at i:52306451 original size:31 final size:31
Alignment explanation
Indices: 52306416--52306474 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
52306406 TAATTTTTAT
*
52306416 TTAAATTTAAATTCAAAGTAAATTTAAATAA
1 TTAAATTTAAATTCAAAATAAATTTAAATAA
*
52306447 TTAAATTTAAATTTAAAATAAATTTAAA
1 TTAAATTTAAATTCAAAATAAATTTAAA
52306475 ATCAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
TTAAATTTAAATTCAAAATAAATTTAAATAA
Found at i:52306468 original size:11 final size:11
Alignment explanation
Indices: 52306423--52306484 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
52306413 TATTTAAATT
* *
52306423 TAAATTCAAAG
1 TAAATTTAAAA
52306434 TAAATTT-AAA
1 TAAATTTAAAA
*
52306444 T-AA-TTAAATT
1 TAAATTTAAA-A
52306454 TAAATTTAAAA
1 TAAATTTAAAA
52306465 TAAATTTAAAA
1 TAAATTTAAAA
*
52306476 TCAATTTAA
1 TAAATTTAA
52306485 CTCTAAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 2 0.05
9 4 0.10
10 4 0.10
11 27 0.64
12 5 0.12
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:52307254 original size:51 final size:51
Alignment explanation
Indices: 52307126--52307311 Score: 284
Period size: 51 Copynumber: 3.6 Consensus size: 51
52307116 CTATAAACTA
*
52307126 AAAGGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
52307177 AAAAGGTCCGATGAGTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 -AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * *
52307229 AAAGGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
52307280 AAAGATCCGATGACTATA-TGTCATCGTGAGTA
1 AAAGGTCCGATGACTA-AGTGTCATCGTGAGTA
52307312 TTAAATGAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
51 74 0.60
52 50 0.40
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:52310636 original size:52 final size:52
Alignment explanation
Indices: 52310554--52310847 Score: 468
Period size: 52 Copynumber: 5.7 Consensus size: 52
52310544 CGAGCTATAA
*
52310554 ATTAAAAGGTCCGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGG
** *
52310606 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATGTTTTATGG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGG
* *
52310658 ATTAAAAGGTCCGATGACTAAGTGTCGTCGTGAGTAAATGAATCCTTTACAG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGG
* * *
52310710 ATT-AAAGGTCCGGTGACTTAGTGTCATCATGAGTAAATGAATCCTTTACGG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGG
*
52310761 ATTAAAAGGTCCGATGACTGAGTGTCATCGTGAGTAAATGAATCCTTTACGG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGG
52310813 ATT-AAAGGTCCGATGACTATA-TGTCATCGTGAGTA
1 ATTAAAAGGTCCGATGACTA-AGTGTCATCGTGAGTA
52310848 TTAAATGAAA
Statistics
Matches: 222, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
51 75 0.34
52 147 0.66
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (52 bp):
ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGG
Found at i:52310777 original size:103 final size:103
Alignment explanation
Indices: 52310554--52310847 Score: 473
Period size: 103 Copynumber: 2.8 Consensus size: 103
52310544 CGAGCTATAA
*
52310554 ATTAAAAGGTCCGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATTAAAAGGTCCG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT-AAAGGTCCG
* ** *
52310619 ATGACTAAGTGTCATCGTGAGTAAATGAATGTTTTATGG
65 ATGACTTAGTGTCATCGTGAGTAAATGAATCCTTTACGG
* * *
52310658 ATTAAAAGGTCCGATGACTAAGTGTCGTCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCCGG
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
*
52310723 TGACTTAGTGTCATCATGAGTAAATGAATCCTTTACGG
66 TGACTTAGTGTCATCGTGAGTAAATGAATCCTTTACGG
*
52310761 ATTAAAAGGTCCGATGACTGAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
1 ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
52310826 TGACTATA-TGTCATCGTGAGTA
66 TGACT-TAGTGTCATCGTGAGTA
52310848 TTAAATGAAA
Statistics
Matches: 175, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
103 121 0.69
104 54 0.31
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (103 bp):
ATTAAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
TGACTTAGTGTCATCGTGAGTAAATGAATCCTTTACGG
Found at i:52312527 original size:15 final size:15
Alignment explanation
Indices: 52312507--52312537 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52312497 ATTTAATTTT
52312507 TATAAATTATAAAAA
1 TATAAATTATAAAAA
*
52312522 TATAAATTATTAAAA
1 TATAAATTATAAAAA
52312537 T
1 T
52312538 GATGCAATTA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:52313260 original size:13 final size:13
Alignment explanation
Indices: 52313206--52313271 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
52313196 CTTTAACCAA
52313206 ACTTTTCAAAA-C
1 ACTTTTCAAAAGC
* *
52313218 TACTTCTCAAAAGA
1 -ACTTTTCAAAAGC
**
52313232 ACTTTTCCACCA-C
1 ACTTTT-CAAAAGC
52313245 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
52313258 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
52313271 A
1 A
52313272 ATGCTAAACT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:52314439 original size:30 final size:31
Alignment explanation
Indices: 52314378--52314440 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52314368 TTACAAAATG
*
52314378 GTCAGTGAACTATTCAAAAGTTTTCATTTAA
1 GTCAATGAACTATTCAAAAGTTTTCATTTAA
*
52314409 GTCAATGAACTATTTAAAAGTTTT-ATTTAA
1 GTCAATGAACTATTCAAAAGTTTTCATTTAA
52314439 GT
1 GT
52314441 AACTGGGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (31 bp):
GTCAATGAACTATTCAAAAGTTTTCATTTAA
Found at i:52315190 original size:10 final size:10
Alignment explanation
Indices: 52315175--52315208 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
52315165 CCCTTTCACC
52315175 TACATATACA
1 TACATATACA
*
52315185 TACATATATA
1 TACATATACA
*
52315195 TATATATACA
1 TACATATACA
52315205 TACA
1 TACA
52315209 CTTACTAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (10 bp):
TACATATACA
Found at i:52347001 original size:108 final size:107
Alignment explanation
Indices: 52346789--52347050 Score: 350
Period size: 108 Copynumber: 2.4 Consensus size: 107
52346779 ATTATAAAGT
* * *
52346789 ATTAACATAAATTGAGA-T-GGGTGTTCAAATAATCATATTAATAAACTAAATGGGCTAAGCATA
1 ATTAACATAAATTGATACTAGTGTGTTCAAATAATCATATTAATAAACCAAATGGGCTAAGCATA
*
52346852 GACACAATTACCACAGTACTTTGTTGCCCTCCCAAAGAAGGC
66 GACACAATTACCACAATACTTTGTTGCCCTCCCAAAGAAGGC
* * *
52346894 ATTAACATAAATTGCATACTAGTGTGTTCAACTGATCATATTAATAAACCAAATGGGCTAAGCCT
1 ATTAACATAAATTG-ATACTAGTGTGTTCAAATAATCATATTAATAAACCAAATGGGCTAAGCAT
* * * *
52346959 AGACACAATTGCTACAATACTTTGTTTCCCTCCCAAATAAGGC
65 AGACACAATTACCACAATACTTTGTTGCCCTCCCAAAGAAGGC
* *
52347002 GTTAA-AGTAAATTGGAATACGAGTGTGTTCAAATAATCATATTAATAAA
1 ATTAACA-TAAATT-G-ATACTAGTGTGTTCAAATAATCATATTAATAAA
52347051 TAGAATGGGG
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
105 14 0.10
106 2 0.01
107 2 0.01
108 87 0.64
109 31 0.23
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (107 bp):
ATTAACATAAATTGATACTAGTGTGTTCAAATAATCATATTAATAAACCAAATGGGCTAAGCATA
GACACAATTACCACAATACTTTGTTGCCCTCCCAAAGAAGGC
Found at i:52347404 original size:71 final size:71
Alignment explanation
Indices: 52347303--52347439 Score: 231
Period size: 71 Copynumber: 1.9 Consensus size: 71
52347293 GAAGACTCAT
52347303 TTTATTTACTTTTTTGGTCCACTAAGTTTCAACATTCCTACCCACAAGA-ATCAACTAAATTAAA
1 TTTATTTACTTTTTTGGTCCACTAAGTTTCAACATTCCTACCCACAA-ACATCAACTAAATTAAA
52347367 CCCAAGA
65 CCCAAGA
* * *
52347374 TTTATTTACTTTTTTGGTCCATTAAGTTTCAACATTCCTACTCACAAACATCAACTAAGTTAAAC
1 TTTATTTACTTTTTTGGTCCACTAAGTTTCAACATTCCTACCCACAAACATCAACTAAATTAAAC
52347439 C
66 C
52347440 TCAAATTCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 1 0.02
71 61 0.98
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (71 bp):
TTTATTTACTTTTTTGGTCCACTAAGTTTCAACATTCCTACCCACAAACATCAACTAAATTAAAC
CCAAGA
Found at i:52348593 original size:25 final size:27
Alignment explanation
Indices: 52348540--52348593 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
52348530 TAAAATTATT
* *
52348540 TTTTATTTCTGTAAAATGTTTTATCAA
1 TTTTATTTCTGTAAAATATTTTATAAA
*
52348567 TTTT-TTTC-GTAAAATATTTTCTAAA
1 TTTTATTTCTGTAAAATATTTTATAAA
52348592 TT
1 TT
52348594 AATAAGACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.67
26 4 0.17
27 4 0.17
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTATTTCTGTAAAATATTTTATAAA
Found at i:52350648 original size:30 final size:30
Alignment explanation
Indices: 52350416--52350640 Score: 306
Period size: 30 Copynumber: 7.5 Consensus size: 30
52350406 TTAGGAGATT
* *
52350416 TTTTAGGGTCAAAATGTAGTTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* * *
52350446 TTCTGGGGTGAAAATGTAATTTTGGGAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* *
52350476 TTTTGGGGTTAAAATGCAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* *
52350506 TTTAGGGGTCAAAATGCAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* * *
52350536 TTTTGAGGTCAAAATATAATTTTGGGAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* *
52350566 TTTTAGGGTTAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
52350596 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
**
52350626 TTACGGGGTCAAAAT
1 TTTTGGGGTCAAAAT
52350641 ATGATTTTTG
Statistics
Matches: 170, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 170 1.00
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (30 bp):
TTTTGGGGTCAAAATGTAATTTTGGAAAAG
Found at i:52352192 original size:16 final size:16
Alignment explanation
Indices: 52352173--52352203 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52352163 CAGGGCATGG
52352173 TGGAGCAGGTGGTGGA
1 TGGAGCAGGTGGTGGA
*
52352189 TGGAGCTGGTGGTGG
1 TGGAGCAGGTGGTGG
52352204 CAGCAGCACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.58, T:0.23
Consensus pattern (16 bp):
TGGAGCAGGTGGTGGA
Found at i:52352478 original size:6 final size:6
Alignment explanation
Indices: 52352451--52352492 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
52352441 ATGTTTAGTG
* * *
52352451 TTTAAA TTTTAA TTTTAA TTTAAA TTTAAA -GTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
52352493 CAATTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:52362686 original size:20 final size:21
Alignment explanation
Indices: 52362647--52362688 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
52362637 ACTAAATCAG
52362647 TTTTTAATATATTTTATTAAT
1 TTTTTAATATATTTTATTAAT
52362668 TTTTTAATA-A-TTTATTTAAT
1 TTTTTAATATATTTTA-TTAAT
52362688 T
1 T
52362689 AAACCGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATATATTTTATTAAT
Found at i:52363134 original size:85 final size:85
Alignment explanation
Indices: 52362990--52363159 Score: 322
Period size: 85 Copynumber: 2.0 Consensus size: 85
52362980 TCCTTTGGTC
52362990 ACTGCAATGGCAAAATAATGGTGCTGAAATGGATGTTAGAAAGAAAACCCAAAACTATCATTTGG
1 ACTGCAATGGCAAAATAATGGTGCTGAAATGGATGTTAGAAAGAAAACCCAAAACTATCATTTGG
52363055 ATAAATCAAATTGTATGTGG
66 ATAAATCAAATTGTATGTGG
* *
52363075 ACTGCAATGGCAAAATAATGGTGCTGAAATGGATGTTAGAAAGAAAACCCCAAATTATCATTTGG
1 ACTGCAATGGCAAAATAATGGTGCTGAAATGGATGTTAGAAAGAAAACCCAAAACTATCATTTGG
52363140 ATAAATCAAATTGTATGTGG
66 ATAAATCAAATTGTATGTGG
52363160 TCTCTCTCAC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (85 bp):
ACTGCAATGGCAAAATAATGGTGCTGAAATGGATGTTAGAAAGAAAACCCAAAACTATCATTTGG
ATAAATCAAATTGTATGTGG
Found at i:52364782 original size:153 final size:153
Alignment explanation
Indices: 52364556--52364836 Score: 370
Period size: 153 Copynumber: 1.8 Consensus size: 153
52364546 ATTAGGAACC
* * ** **
52364556 AGTTCATCCATAAATCACTAAAAACTTTAAGGGGAAGACATTTATGTCCCTGAGGAATTGCCAAA
1 AGTTCATCCATAAACCACTAAAAACTTCAAGGGGAAGACACGTATGTCCCAAAGGAATTGCCAAA
* * *
52364621 AATACCCTCCTATCATACTACTCTAACGATGGTC-ATAGGTGGATAT-ATATACAAAGGATTTAA
66 AATACCCTCCTATCACACTACTCTAACAATGG-CAATAGGTGGATATAATACACAAAGGATTTAA
52364684 GCAGCATTCCACTGACATCCAACT
130 GCAGCATTCCACTGACATCCAACT
* * **
52364708 AGTTCATCCATAAACCACTGAAAACTTCCAAGGGGCAGAGGCGTATGTCCCAAAGGAATTG-CAA
1 AGTTCATCCATAAACCACTAAAAACTT-CAAGGGGAAGACACGTATGTCCCAAAGGAATTGCCAA
* *
52364772 AATATACCCTCCTATCACACTACTCTAACAATGGCAATTGGTTGATATACATACACAAAGGATTT
65 AA-ATACCCTCCTATCACACTACTCTAACAATGGCAATAGGTGGATATA-ATACACAAAGGATTT
52364837 CAATAGCACA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
152 31 0.28
153 64 0.59
155 14 0.13
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (153 bp):
AGTTCATCCATAAACCACTAAAAACTTCAAGGGGAAGACACGTATGTCCCAAAGGAATTGCCAAA
AATACCCTCCTATCACACTACTCTAACAATGGCAATAGGTGGATATAATACACAAAGGATTTAAG
CAGCATTCCACTGACATCCAACT
Found at i:52371332 original size:32 final size:31
Alignment explanation
Indices: 52371258--52371347 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 31
52371248 TGCAATTGCT
* * * *
52371258 ATCAATTATATCATAAAAACTCGTA-TATTTC
1 ATCAATTAGATCAT-AAAATTCATATTATTAC
*
52371289 ATTAATTAGATCATAAAATTCATATTATTGAC
1 ATCAATTAGATCATAAAATTCATATTATT-AC
*
52371321 ATCAATTAGATCTTAAAAAATTCATAT
1 ATCAATTAGATC--ATAAAATTCATAT
52371348 ATTTCATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
30 8 0.17
31 16 0.33
32 12 0.25
34 12 0.25
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.39
Consensus pattern (31 bp):
ATCAATTAGATCATAAAATTCATATTATTAC
Found at i:52379909 original size:8 final size:8
Alignment explanation
Indices: 52379892--52379922 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
52379882 GAATTTTACA
52379892 TTTATATT
1 TTTATATT
*
52379900 TTTTTATT
1 TTTATATT
52379908 TTTATATT
1 TTTATATT
52379916 TTTATAT
1 TTTATAT
52379923 AAATGTGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATATT
Found at i:52380834 original size:3 final size:3
Alignment explanation
Indices: 52380828--52380861 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
52380818 ATTATTCACA
52380828 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
52380862 TATGCCCCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:52381333 original size:41 final size:40
Alignment explanation
Indices: 52381245--52381341 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
52381235 AAAAGGTAAA
*
52381245 GCATTAGCGGCGCTTATGAGAAAGCGACGCTAAAGGTCAG
1 GCATTAGCGGCGCTTATGAGAAAGCGACGCTAAAGATCAG
* * * *
52381285 GAAATTAGCGGTGTTTATG-GAGAAGCGCCGCTAAAGATCAAG
1 G-CATTAGCGGCGCTTATGAGA-AAGCGACGCTAAAGATC-AG
*
52381327 GCATTAGCGACGCTT
1 GCATTAGCGGCGCTT
52381342 CTACAGATCG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
40 3 0.07
41 39 0.87
42 3 0.07
ACGTcount: A:0.30, C:0.19, G:0.31, T:0.21
Consensus pattern (40 bp):
GCATTAGCGGCGCTTATGAGAAAGCGACGCTAAAGATCAG
Found at i:52384716 original size:43 final size:43
Alignment explanation
Indices: 52384666--52384764 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
52384656 ATCTGTTAAT
* *
52384666 TTTAGCGGCGTTTGTGGGAAAAGCG-TCGCTAAAAATCATGTTC
1 TTTAGCGGCGTTTATGGGAAAAGCGCT-GCTAAAAACCATGTTC
* * * *
52384709 TTTAGCGGCGTTTATGTGAAAAGCGCTGTTAAAGACCTTGTTC
1 TTTAGCGGCGTTTATGGGAAAAGCGCTGCTAAAAACCATGTTC
*
52384752 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
52384765 TCCTCAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTATGGGAAAAGCGCTGCTAAAAACCATGTTC
Found at i:52387371 original size:22 final size:23
Alignment explanation
Indices: 52387323--52387371 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
52387313 CTAATTTATC
*
52387323 GATTTTTTAAAACAATATTTTGT
1 GATTTTTTAAAACAATATTTAGT
52387346 -ATTTTTTAATAA-AAT-TTTAGT
1 GATTTTTTAA-AACAATATTTAGT
52387367 GATTT
1 GATTT
52387372 ATTTCACCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 16 0.70
23 2 0.09
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (23 bp):
GATTTTTTAAAACAATATTTAGT
Found at i:52390980 original size:22 final size:23
Alignment explanation
Indices: 52390955--52390997 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
52390945 CGATATAGAA
*
52390955 ATCAAAATACT-ATTTTTTAAAT
1 ATCAAAATACTCATGTTTTAAAT
52390977 ATCAAAATACTCATGTTTTAA
1 ATCAAAATACTCATGTTTTAA
52390998 TTCTATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (23 bp):
ATCAAAATACTCATGTTTTAAAT
Found at i:52410462 original size:10 final size:11
Alignment explanation
Indices: 52410438--52410470 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
52410428 ACAAATAAAT
*
52410438 TTTTTATAATG
1 TTTTTATAATA
52410449 TTTTTA-AATA
1 TTTTTATAATA
52410459 TTTTTATAATA
1 TTTTTATAATA
52410470 T
1 T
52410471 ATATTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTTTATAATA
Found at i:52420038 original size:108 final size:108
Alignment explanation
Indices: 52419907--52420127 Score: 433
Period size: 108 Copynumber: 2.0 Consensus size: 108
52419897 GATTAAACAT
*
52419907 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATTAAGAAACAGACTCA
1 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGAAGAAACAGACTCA
52419972 TAACCGAAAACAAAAATAAAAAGCAATGAAAATTCAATGGGAA
66 TAACCGAAAACAAAAATAAAAAGCAATGAAAATTCAATGGGAA
52420015 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGAAGAAACAGACTCA
1 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGAAGAAACAGACTCA
52420080 TAACCGAAAACAAAAATAAAAAGCAATGAAAATTCAATGGGAA
66 TAACCGAAAACAAAAATAAAAAGCAATGAAAATTCAATGGGAA
52420123 AGAAA
1 AGAAA
52420128 GACCCAAACT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 112 1.00
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.14
Consensus pattern (108 bp):
AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGAAGAAACAGACTCA
TAACCGAAAACAAAAATAAAAAGCAATGAAAATTCAATGGGAA
Found at i:52420070 original size:52 final size:52
Alignment explanation
Indices: 52419907--52420071 Score: 122
Period size: 52 Copynumber: 3.1 Consensus size: 52
52419897 GATTAAACAT
*
52419907 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATTA
1 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGA
* * * * * ** * ***
52419959 AGAAACAGACTCATAACCGAAAACAAAAATAAAAAGCAATGAA-A--ATTCAA-TGGGAA
1 AG-AA-A-AC-AAT-ACCCAGAAC-CAATTCCACAGC-ATGAACATGATTCAACAATG-A
52420015 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGA
1 AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGA
52420067 AGAAA
1 AGAAA
52420072 CAGACTCATA
Statistics
Matches: 78, Mismatches: 23, Indels: 24
0.62 0.18 0.19
Matches are distributed among these distances:
49 5 0.06
50 8 0.10
51 7 0.09
52 16 0.21
53 5 0.06
54 2 0.03
55 4 0.05
56 11 0.14
57 7 0.09
58 8 0.10
59 5 0.06
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.15
Consensus pattern (52 bp):
AGAAAACAATACCCAGAACCAATTCCACAGCATGAACATGATTCAACAATGA
Found at i:52430710 original size:127 final size:127
Alignment explanation
Indices: 52430484--52430938 Score: 797
Period size: 127 Copynumber: 3.6 Consensus size: 127
52430474 GGTGGAAGTT
*
52430484 AGAGAGAAACCCTGATTTTGTGTTTGTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
1 AGAGAGAAACCCTGATTTTGTGTTTCTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
* * *
52430549 TTTCCAGTTCAATTGAAAAATTCCTATTTTATGTGTTTGAATGCAGGAAACAAAGATTTCTA
66 TTTCTAGTTCAATTGAAACAGTCCTATTTTATGTGTTTGAATGCAGGAAACAAAGATTTCTA
*
52430611 AGAGAGAAACCCTGATTTTGTGTTTGTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
1 AGAGAGAAACCCTGATTTTGTGTTTCTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
52430676 TTTCTAGTTCAATTGAAACAGTCCTATTTTATGTGTTTGAATGCAGGAAACAAAGATTTCTA
66 TTTCTAGTTCAATTGAAACAGTCCTATTTTATGTGTTTGAATGCAGGAAACAAAGATTTCTA
*
52430738 AGAGAGAAACCCTGATTTTTTGTTTCTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
1 AGAGAGAAACCCTGATTTTGTGTTTCTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
** *
52430803 TTTCTAGTTCAATTGAAACAGTTTTATTTTATGTGTTTGAATGCAGGAAACAGAGATTTCTA
66 TTTCTAGTTCAATTGAAACAGTCCTATTTTATGTGTTTGAATGCAGGAAACAAAGATTTCTA
* *
52430865 AGAGAG--ACCCTGATTTTGTGTTTCTTGAACTATTTTAGGTGAGATTTAGATTGGGACTTCAAA
1 AGAGAGAAACCCTGATTTTGTGTTTCTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
52430928 TTTCTAGTTCA
66 TTTCTAGTTCA
52430939 TTTGTCTTTA
Statistics
Matches: 317, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 65 0.21
127 252 0.79
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (127 bp):
AGAGAGAAACCCTGATTTTGTGTTTCTTGAATTATATTAGGTGAGATTTAGATTGGGACTTCAAA
TTTCTAGTTCAATTGAAACAGTCCTATTTTATGTGTTTGAATGCAGGAAACAAAGATTTCTA
Found at i:52431668 original size:369 final size:366
Alignment explanation
Indices: 52430943--52432405 Score: 2279
Period size: 366 Copynumber: 4.0 Consensus size: 366
52430933 AGTTCATTTG
*
52430943 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGGCAGATGACTCCTAAATGCGATGGTACTTC
1 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACTTC
** * * * *
52431008 ACAAAGTGGATGTAAAGAGGCTGAGGATTCGCGGCTTCCCTTACCCAAAGCTGGTACTCAACTGT
66 ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCCAAAGCTGGTTCTCAGCAGT
* * *
52431073 CATCTGTGAATATGATGTTTGAAAGTCCTATGCCAATTTTAGTTTACAGGAGGAAGAAACGGTGG
131 CATCTGTGAGTGTGATGTTTGAAAGTCCTATGCCGATTTTAGTTTACAGGAGGAAGAAACGGTGG
* *
52431138 GGCTGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAACTTTTGTGCACAGGAGCTGGTTAATTCAAA
196 GGCAGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAACTTTTGTGCACAGGAGCCGGTTAATTCAAA
***
52431203 GAGAAGTGTGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAA
261 GAGAAGCACGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAA
* *
52431268 AGGGGGTTTCTCGAGTTGAACATGAAACTGCAACAAAGACT
326 AGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGATT
* * *
52431309 TCTTTATGTGATTGTATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGTGTTGGTACTTC
1 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACTTC
*
52431374 ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCTACAA-CTGGTTCTCAGCAG
66 ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCCA-AAGCTGGTTCTCAGCAG
* * *
52431438 CCATCTGTGAGTGTGATGTTTGAAAGTCCTATGCCGATTTCAGTTTACAGCAGGGGGAAGAAACG
130 TCATCTGTGAGTGTGATGTTTGAAAGTCCTATGCCGATTTTAGTTT--A-CAGGAGGAAGAAACG
* *
52431503 GTGGGGCAGCAGCAGCAGTGCCAGCT-CTGTTGTTGCCAACTTTTATGCACAGGAGCCGGTTAAT
192 GTGGGGCAGCAGCAGCAGTGCTAG-TGCTGTTGTTGCCAACTTTTGTGCACAGGAGCCGGTTAAT
*
52431567 TCAAAGAGAAGCACGGATTGCCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGA
256 TCAAAGAGAAGCACGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGA
*
52431632 GCAAAAGGGAGTTTCTCGAGTTGAACATGGAACTGCAACAAAGATT
321 GCAAAAGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGATT
* * * * *
52431678 TCTTTATGTGATTGGACGTCTGGTAAAGGAACTTGCAAGATGACTCCTAAATGTGATGGTACTTC
1 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACTTC
*
52431743 ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCCAAAGTTGGTTCTCAGCAGT
66 ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCCAAAGCTGGTTCTCAGCAGT
* * * *
52431808 CATCTGTAAGTGTGATGTTTGAAAGTCCTGTGCCGATTTTAATTTACAGGAGGAAGAAACAGAT-
131 CATCTGTGAGTGTGATGTTTGAAAGTCCTATGCCGATTTTAGTTTACAGGAGGAAGAAAC-GGTG
* *
52431872 GGGCAGCAGCAGCAGTGCTAGCGCTGTTGTTGCCAACTTTTGTACACAGGAGCCGGTTAATTCAA
195 GGGCAGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAACTTTTGTGCACAGGAGCCGGTTAATTCAA
** *
52431937 AGAGAAGTGCGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCGA
260 AGAGAAGCACGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAA
*
52432002 AAGGGAGTTTCTCGAGTTGAACTTGAAACTGCAACAAAGATT
325 AAGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGATT
*
52432044 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACATC
1 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACTTC
** * *
52432109 ACAAACCGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACTCGAAA-CTGGTTCTCAGCGG
66 ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTAC-CCAAAGCTGGTTCTCAGCAG
* * *
52432173 TTATCTGTGAGTGTGATGTTTGGAAGTCCTATGCCGATTTTAGTTTACAGTAGGAGGAGAAAACG
130 TCATCTGTGAGTGTGATGTTTGAAAGTCCTATGCCGATTTTAGTTTACAGGAGGA--AG-AAACG
52432238 GTGGGGCAGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAA-TTTTGGTGCACAGGAGCCGGTTAAT
192 GTGGGGCAGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAACTTTT-GTGCACAGGAGCCGGTTAAT
* *
52432302 TCAAAGAGAAGCACAGATTGTCTTTCTGTTGTTAGTTCTGATGTGCTTTCAGAGGCAGTTATGGA
256 TCAAAGAGAAGCACGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGA
* * *
52432367 ACAAAAGGGAGTTCCTCGAGTTGAACATGAAATTGCAAC
321 GCAAAAGGGAGTTTCTCGAGTTGAACATGAAACTGCAAC
52432406 TGTTAGAGCT
Statistics
Matches: 1001, Mismatches: 82, Indels: 25
0.90 0.07 0.02
Matches are distributed among these distances:
366 492 0.49
367 9 0.01
368 11 0.01
369 488 0.49
370 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (366 bp):
TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACTTC
ACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCCAAAGCTGGTTCTCAGCAGT
CATCTGTGAGTGTGATGTTTGAAAGTCCTATGCCGATTTTAGTTTACAGGAGGAAGAAACGGTGG
GGCAGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAACTTTTGTGCACAGGAGCCGGTTAATTCAAA
GAGAAGCACGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAA
AGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGATT
Found at i:52431986 original size:735 final size:735
Alignment explanation
Indices: 52430943--52432405 Score: 2382
Period size: 735 Copynumber: 2.0 Consensus size: 735
52430933 AGTTCATTTG
* *
52430943 TCTTTATGTGATTGGATGTCTGGTAATGAAACTTGGCAGATGACTCCTAAATGCGATGGTACTTC
1 TCTTTATGTGATTGGACGTCTGGTAAAGAAACTTGGCAGATGACTCCTAAATGCGATGGTACTTC
* * *
52431008 ACAAAGTGGATGTAAAGAGGCTGAGGATTCGCGGCTTCCCTTACCCAAAGCTGGTACTCAACTGT
66 ACAAAGTGGATGTAAAGAGGCTGAGGATTCACGCCTTCCCTTACCCAAAGCTGGTACTCAACAGT
* *
52431073 CATCTGTGAATATGATGTTTGAAAGTCCTATGCCAATTTTAGTTTACAGGAGGAAGAAACGGTGG
131 CATCTGTGAATATGATGTTTGAAAGTCCTATGCCAATTTTAATTTACAGGAGGAAGAAACGATGG
* * * *
52431138 GGCTGCAGCAGCAGTGCTAGTGCTGTTGTTGCCAACTTTTGTGCACAGGAGCTGGTTAATTCAAA
196 GGCAGCAGCAGCAGTGCTAGCGCTGTTGTTGCCAACTTTTGTACACAGGAGCCGGTTAATTCAAA
*
52431203 GAGAAGTGTGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAA
261 GAGAAGTGCGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAA
* *
52431268 AGGGGGTTTCTCGAGTTGAACATGAAACTGCAACAAAGACTTCTTTATGTGATTGTATGTCTGGT
326 AGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGACTTCTTTATGTGATTGGATGTCTGGT
* * * **
52431333 AATGAAACTTGCCAGATGACTCCTAAATGTGTTGGTACTTCACAAAGTGGATGTAAAGAGGCTGA
391 AATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACATCACAAACCGGATGTAAAGAGGCTGA
*
52431398 GGATTCATGCCTTCCCTTAC-CTACAACTGGTTCTCAGCAGCCATCTGTGAGTGTGATGTTTGAA
456 GGATTCATGCCTTCCCTTACTCGA-AACTGGTTCTCAGCAGCCATCTGTGAGTGTGATGTTTGAA
*
52431462 AGTCCTATGCCGATTTCAGTTTACAGCAGGGGGA-AGAAACGGTGGGGCAGCAGCAGCAGTGCCA
520 AGTCCTATGCCGATTTCAGTTTACAGCAGGAGGAGA-AAACGGTGGGGCAGCAGCAGCAGTGCCA
*
52431526 GCT-CTGTTGTTGCCAACTTTT-ATGCACAGGAGCCGGTTAATTCAAAGAGAAGCACGGATTGCC
584 G-TGCTGTTGTTGCCAA-TTTTGATGCACAGGAGCCGGTTAATTCAAAGAGAAGCACAGATTGCC
* *
52431589 TTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAAAGGGAGTTTCTCGAGTT
647 TTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAACAAAAGGGAGTTCCTCGAGTT
*
52431654 GAACATGGAACTGCAACAAAGATT
712 GAACATGAAACTGCAACAAAGATT
* *
52431678 TCTTTATGTGATTGGACGTCTGGTAAAGGAACTT-GCAAGATGACTCCTAAATGTGATGGTACTT
1 TCTTTATGTGATTGGACGTCTGGTAAAGAAACTTGGC-AGATGACTCCTAAATGCGATGGTACTT
* * * *
52431742 CACAAAGTGGATGTAAAGAGGCTGAGGATTCATGCCTTCCCTTACCCAAAGTTGGTTCTCAGCAG
65 CACAAAGTGGATGTAAAGAGGCTGAGGATTCACGCCTTCCCTTACCCAAAGCTGGTACTCAACAG
* * *
52431807 TCATCTGT-AAGTGTGATGTTTGAAAGTCCTGTGCCGATTTTAATTTACAGGAGGAAGAAACAGA
130 TCATCTGTGAA-TATGATGTTTGAAAGTCCTATGCCAATTTTAATTTACAGGAGGAAGAAAC-GA
52431871 T-GGGCAGCAGCAGCAGTGCTAGCGCTGTTGTTGCCAACTTTTGTACACAGGAGCCGGTTAATTC
193 TGGGGCAGCAGCAGCAGTGCTAGCGCTGTTGTTGCCAACTTTTGTACACAGGAGCCGGTTAATTC
52431935 AAAGAGAAGTGCGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGC
258 AAAGAGAAGTGCGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGC
* * *
52432000 GAAAGGGAGTTTCTCGAGTTGAACTTGAAACTGCAACAAAGATTTCTTTATGTGATTGGATGTCT
323 AAAAGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGACTTCTTTATGTGATTGGATGTCT
52432065 GGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACATCACAAACCGGATGTAAAGAGGC
388 GGTAATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACATCACAAACCGGATGTAAAGAGGC
* **
52432130 TGAGGATTCATGCCTTCCCTTACTCGAAACTGGTTCTCAGCGGTTATCTGTGAGTGTGATGTTTG
453 TGAGGATTCATGCCTTCCCTTACTCGAAACTGGTTCTCAGCAGCCATCTGTGAGTGTGATGTTTG
* * * *
52432195 GAAGTCCTATGCCGATTTTAGTTTACAGTAGGAGGAGAAAACGGTGGGGCAGCAGCAGCAGTGCT
518 AAAGTCCTATGCCGATTTCAGTTTACAGCAGGAGGAGAAAACGGTGGGGCAGCAGCAGCAGTGCC
* *
52432260 AGTGCTGTTGTTGCCAATTTTGGTGCACAGGAGCCGGTTAATTCAAAGAGAAGCACAGATTGTCT
583 AGTGCTGTTGTTGCCAATTTTGATGCACAGGAGCCGGTTAATTCAAAGAGAAGCACAGATTGCCT
*
52432325 TTCTGTTGTTAGTTCTGATGTGCTTTCAGAGGCAGTTATGGAACAAAAGGGAGTTCCTCGAGTTG
648 TTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAACAAAAGGGAGTTCCTCGAGTTG
*
52432390 AACATGAAATTGCAAC
713 AACATGAAACTGCAAC
52432406 TGTTAGAGCT
Statistics
Matches: 673, Mismatches: 48, Indels: 14
0.92 0.07 0.02
Matches are distributed among these distances:
734 9 0.01
735 659 0.98
736 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (735 bp):
TCTTTATGTGATTGGACGTCTGGTAAAGAAACTTGGCAGATGACTCCTAAATGCGATGGTACTTC
ACAAAGTGGATGTAAAGAGGCTGAGGATTCACGCCTTCCCTTACCCAAAGCTGGTACTCAACAGT
CATCTGTGAATATGATGTTTGAAAGTCCTATGCCAATTTTAATTTACAGGAGGAAGAAACGATGG
GGCAGCAGCAGCAGTGCTAGCGCTGTTGTTGCCAACTTTTGTACACAGGAGCCGGTTAATTCAAA
GAGAAGTGCGGATTGTCTTTCTGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAGCAAA
AGGGAGTTTCTCGAGTTGAACATGAAACTGCAACAAAGACTTCTTTATGTGATTGGATGTCTGGT
AATGAAACTTGCCAGATGACTCCTAAATGCGATGGTACATCACAAACCGGATGTAAAGAGGCTGA
GGATTCATGCCTTCCCTTACTCGAAACTGGTTCTCAGCAGCCATCTGTGAGTGTGATGTTTGAAA
GTCCTATGCCGATTTCAGTTTACAGCAGGAGGAGAAAACGGTGGGGCAGCAGCAGCAGTGCCAGT
GCTGTTGTTGCCAATTTTGATGCACAGGAGCCGGTTAATTCAAAGAGAAGCACAGATTGCCTTTC
TGTTGTTAGTTCTGATGCGCTTTCAGAGGCAGTTATGGAACAAAAGGGAGTTCCTCGAGTTGAAC
ATGAAACTGCAACAAAGATT
Found at i:52442399 original size:26 final size:26
Alignment explanation
Indices: 52442370--52442456 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 26
52442360 TAAGATGACT
52442370 ATATAAAAAATTTTAATAAA-TAAAAA
1 ATATAAAAAATTTTAA-AAATTAAAAA
* *
52442396 ATATATAAAATTATAAAATATTAAAATA
1 ATATAAAAAATTTTAAAA-ATTAAAA-A
52442424 ATATAATATAAATATTTACAAAATTAAAAA
1 ATATAA-A-AAAT-TTTA-AAAATTAAAAA
52442454 ATA
1 ATA
52442457 ATATGAGCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 2 0.04
26 15 0.30
27 5 0.10
28 6 0.12
29 1 0.02
30 8 0.16
31 10 0.20
32 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
ATATAAAAAATTTTAAAAATTAAAAA
Found at i:52442406 original size:16 final size:15
Alignment explanation
Indices: 52442372--52442424 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
52442362 AGATGACTAT
*
52442372 ATAAAAAATTTTAATAA
1 ATAAAAAATATT-A-AA
52442389 ATAAAAAATATATAAA
1 ATAAAAAATAT-TAAA
*
52442405 ATTATAAAATATTAAA
1 A-TAAAAAATATTAAA
52442421 ATAA
1 ATAA
52442425 TATAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 20 0.65
18 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAAAATATTAAA
Found at i:52442431 original size:16 final size:17
Alignment explanation
Indices: 52442387--52442433 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
52442377 AAATTTTAAT
52442387 AAATAA-AAAATATATA
1 AAATAATAAAATATATA
*
52442403 AAATTATAAAATAT-TA
1 AAATAATAAAATATATA
*
52442419 AAATAATATAATATA
1 AAATAATAAAATATA
52442434 AATATTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAATAAAATATATA
Found at i:52442447 original size:33 final size:31
Alignment explanation
Indices: 52442398--52442460 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
52442388 AATAAAAAAT
* *
52442398 ATATAAAATTATAAAA-TATTAAAATAATATA
1 ATATAAAATTACAAAATTA-AAAAATAATATA
52442429 ATATAAATATTTACAAAATTAAAAAATAATAT
1 ATATAAA-A-TTACAAAATTAAAAAATAATAT
52442461 GAGCGTGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 7 0.26
32 1 0.04
33 17 0.63
34 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
ATATAAAATTACAAAATTAAAAAATAATATA
Found at i:52442450 original size:31 final size:30
Alignment explanation
Indices: 52442391--52442456 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
52442381 TTTAATAAAT
52442391 AAAAA-AT-ATATAAAATTATAAAATATTA
1 AAAAATATAATATAAAATTATAAAATATTA
52442419 AAATAATATAATATAAATATT-TACAAA-ATTA
1 AAA-AATATAATATAAA-ATTATA-AAATATTA
52442450 AAAAATA
1 AAAAATA
52442457 ATATGAGCGT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
28 3 0.09
29 2 0.06
30 6 0.18
31 16 0.48
32 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATATAATATAAAATTATAAAATATTA
Found at i:52443531 original size:26 final size:26
Alignment explanation
Indices: 52443490--52443540 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
52443480 CAATGAAATA
* * *
52443490 AATCAGTTTTCCCATTTCTATCAATC
1 AATCAGTTCTCCCATTACCATCAATC
*
52443516 AATCAGTTCTCTCATTACCATCAAT
1 AATCAGTTCTCCCATTACCATCAAT
52443541 TTTTTGTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.39
Consensus pattern (26 bp):
AATCAGTTCTCCCATTACCATCAATC
Found at i:52444294 original size:9 final size:9
Alignment explanation
Indices: 52444282--52444337 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
52444272 TATATATGTA
52444282 TTATATTTT
1 TTATATTTT
52444291 TTATGA-TTT
1 TTAT-ATTTT
**
52444300 TTATAAATT
1 TTATATTTT
*
52444309 TTATAATTT
1 TTATATTTT
52444318 TTATGATTTT
1 TTAT-ATTTT
52444328 TTATATTTT
1 TTATATTTT
52444337 T
1 T
52444338 ATTAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 1 0.02
9 31 0.76
10 9 0.22
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (9 bp):
TTATATTTT
Found at i:52444310 original size:18 final size:18
Alignment explanation
Indices: 52444289--52444371 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
52444279 GTATTATATT
52444289 TTTTATGATTTTTAT-AAA
1 TTTTAT-ATTTTTATAAAA
* **
52444307 TTTTATAATTTTTATGATT
1 TTTTAT-ATTTTTATAAAA
52444326 TTTTATATTTTTATTAAAA
1 TTTTATATTTTTA-TAAAA
* *
52444345 TTTAATATTTTT-TATAA
1 TTTTATATTTTTATAAAA
52444362 TTTTAT-TTTT
1 TTTTATATTTT
52444372 ATCAAAGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 4 0.07
17 9 0.17
18 21 0.39
19 20 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTATAAAA
Found at i:52444312 original size:27 final size:26
Alignment explanation
Indices: 52444282--52444340 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
52444272 TATATATGTA
52444282 TTATATTTTTTATGATTTTTATAAATT
1 TTATATTTTTTATGATTTTT-TAAATT
* *
52444309 TTATAATTTTTATGATTTTTTATATT
1 TTATATTTTTTATGATTTTTTAAATT
52444335 TT-TATT
1 TTATATT
52444341 AAAATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 7 0.24
27 19 0.66
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (26 bp):
TTATATTTTTTATGATTTTTTAAATT
Found at i:52444328 original size:28 final size:27
Alignment explanation
Indices: 52444282--52444367 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 27
52444272 TATATATGTA
*
52444282 TTATATTTTTTATGA-TTTTTATAAATT
1 TTATAATTTTTATGATTTTTTAT-AATT
*
52444309 TTATAATTTTTATGATTTTTTATATTT
1 TTATAATTTTTATGATTTTTTATAATT
* *
52444336 TTATTAAAATTTAAT-ATTTTTTATAATT
1 TTA-T-AATTTTTATGATTTTTTATAATT
52444364 TTAT
1 TTAT
52444368 TTTTATCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 21 0.41
28 23 0.45
29 7 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
TTATAATTTTTATGATTTTTTATAATT
Found at i:52446390 original size:25 final size:25
Alignment explanation
Indices: 52446336--52446391 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
52446326 TAATTAATTC
* * *
52446336 TCAAAATTTATTTAATTTAATATAT
1 TCAAAATTGATGTAATATAATATAT
52446361 T-AAAATTGATGTAAGTATAATA-AT
1 TCAAAATTGATGTAA-TATAATATAT
52446385 TCAAAAT
1 TCAAAAT
52446392 AATACAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (25 bp):
TCAAAATTGATGTAATATAATATAT
Found at i:52446963 original size:18 final size:20
Alignment explanation
Indices: 52446909--52446957 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
52446899 ATTAGTAGAA
52446909 ACAATTAATCAAATCAACTACT
1 ACAATTAAT--AATCAACTACT
52446931 ACAATTAATAATCAACTA-T
1 ACAATTAATAATCAACTACT
52446950 A-AATTAAT
1 ACAATTAAT
52446958 TGTCAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.26
19 2 0.07
20 9 0.33
22 9 0.33
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (20 bp):
ACAATTAATAATCAACTACT
Found at i:52447396 original size:31 final size:30
Alignment explanation
Indices: 52447354--52447461 Score: 173
Period size: 31 Copynumber: 3.6 Consensus size: 30
52447344 TTTTAGCCTT
52447354 AAAAATATTATTTAAAAAAGTAGGGGTACA
1 AAAAATATTATTTAAAAAAGTAGGGGTACA
52447384 AAAATATATTATTTAAAAAAGTAGGGGTACA
1 AAAA-ATATTATTTAAAAAAGTAGGGGTACA
* *
52447415 AATATATATTATTT-AAAAAGTAGGGGTATA
1 AA-AAATATTATTTAAAAAAGTAGGGGTACA
52447445 AAAAATATTATTTAAAA
1 AAAAATATTATTTAAAA
52447462 GTTTTGGACT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
29 10 0.14
30 24 0.33
31 37 0.51
32 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (30 bp):
AAAAATATTATTTAAAAAAGTAGGGGTACA
Found at i:52452173 original size:11 final size:11
Alignment explanation
Indices: 52452150--52452212 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
52452140 TCAAATTTAT
52452150 TTTAATCTTAAA
1 TTTAAT-TTAAA
*
52452162 TTTATTTTAAA
1 TTTAATTTAAA
* *
52452173 TTCAATTCAAA
1 TTTAATTTAAA
*
52452184 TTTAAATTTGAA
1 TTT-AATTTAAA
52452196 TTTAATTTAAA
1 TTTAATTTAAA
52452207 TTTAAT
1 TTTAAT
52452213 GTTATTATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 28 0.67
12 14 0.33
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:52452202 original size:17 final size:16
Alignment explanation
Indices: 52452160--52452228 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 16
52452150 TTTAATCTTA
* *
52452160 AATTTATTTTAAATTC
1 AATTTAATTTAAATTT
*
52452176 AATTCAAATTTAAATTT
1 AATT-TAATTTAAATTT
52452193 GAATTTAATTTAAATTT
1 -AATTTAATTTAAATTT
52452210 AATGTT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
52452227 AA
1 AA
52452229 AAAAAGAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
16 10 0.22
17 31 0.69
18 4 0.09
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:52452229 original size:6 final size:6
Alignment explanation
Indices: 52452157--52452211 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
52452147 TATTTTAATC
* * * *
52452157 TTAAAT TT-ATT TTAAA- TTCAAT TCAAAT TTAAAT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
52452202 TTAAAT TTAA
1 TTAAAT TTAA
52452212 TGTTATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
5 13 0.33
6 26 0.67
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:52452434 original size:20 final size:21
Alignment explanation
Indices: 52452409--52452448 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
52452399 GTGCCTACTG
*
52452409 CTGCTGGCCACC-AGCTCCAT
1 CTGCTGACCACCAAGCTCCAT
52452429 CTGCTGACCACCAAGCTCCA
1 CTGCTGACCACCAAGCTCCA
52452449 CCATGCCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.45, G:0.17, T:0.17
Consensus pattern (21 bp):
CTGCTGACCACCAAGCTCCAT
Found at i:52452986 original size:15 final size:15
Alignment explanation
Indices: 52452961--52453000 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
52452951 TAGTAGCTAA
*
52452961 AATATTAATAACTATT
1 AATA-TAATAAATATT
52452977 AATATAATAAATATT
1 AATATAATAAATATT
52452992 AATAATAAT
1 AAT-ATAAT
52453001 GACAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATAATAAATATT
Found at i:52453016 original size:22 final size:22
Alignment explanation
Indices: 52452982--52453023 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52452972 CTATTAATAT
*
52452982 AATAAATATTAATAATAATGAC
1 AATAAATAGTAATAATAATGAC
*
52453004 AATAATTAGTAATAATAATG
1 AATAAATAGTAATAATAATG
52453024 CTAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AATAAATAGTAATAATAATGAC
Found at i:52454231 original size:29 final size:30
Alignment explanation
Indices: 52454159--52454316 Score: 205
Period size: 30 Copynumber: 5.3 Consensus size: 30
52454149 TTGCTTATAA
*
52454159 GACCCCAAAAC-TTTCCAAAAATTATATTTT
1 GACCCCAAAACTTTTCC-AAAATTACATTTT
* *
52454189 AACCCCAAATCTTTTCCAAAATTACA-TTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
*
52454218 GACCCCAAAACTTTTTCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
**
52454248 GACCCTTAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
52454278 GACCCTAAAAC-TTTCAAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
*
52454307 TACCCCAAAA
1 GACCCCAAAA
52454317 ATTTCCTAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
29 51 0.45
30 57 0.50
31 5 0.04
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.34
Consensus pattern (30 bp):
GACCCCAAAACTTTTCCAAAATTACATTTT
Found at i:52454231 original size:59 final size:58
Alignment explanation
Indices: 52454159--52454315 Score: 210
Period size: 59 Copynumber: 2.7 Consensus size: 58
52454149 TTGCTTATAA
*
52454159 GACCCCAAAACTTTCCAAAAATTATATTTTAACCCCAAATCTTTTCCAAAATTACA-TTT
1 GACCCCAAAACTTT-CAAAAATTACATTTTAACCCCAAA-CTTTTCCAAAATTACATTTT
* *
52454218 GACCCCAAAACTTTTTC-AAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAAC--TTTCAAAAATTACATTTTAACCC-CAAACTTTTCCAAAATTACATTTT
* *
52454278 GACCCTAAAACTTTCAAAAATTACATTTTTACCCCAAA
1 GACCCCAAAACTTTCAAAAATTACATTTTAACCCCAAA
52454316 AATTTCCTAA
Statistics
Matches: 87, Mismatches: 6, Indels: 11
0.84 0.06 0.11
Matches are distributed among these distances:
58 7 0.08
59 60 0.69
60 17 0.20
61 3 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (58 bp):
GACCCCAAAACTTTCAAAAATTACATTTTAACCCCAAACTTTTCCAAAATTACATTTT
Found at i:52454327 original size:29 final size:29
Alignment explanation
Indices: 52454159--52454327 Score: 178
Period size: 29 Copynumber: 5.7 Consensus size: 29
52454149 TTGCTTATAA
* *
52454159 GACCCCAAAACTTTCCAAAAATTATATTTT
1 GACCCCAAAATTTTCC-AAAATTACATTTT
* *
52454189 AACCCCAAATCTTTTCCAAAATTACA-TTT
1 GACCCCAAA-ATTTTCCAAAATTACATTTT
*
52454218 GACCCCAAAACTTTTTCAAAATTACATTTT
1 GACCCCAAAA-TTTTCCAAAATTACATTTT
* *
52454248 GACCCTTAAACTTTTCCAAAATTACATTTT
1 GACCC-CAAAATTTTCCAAAATTACATTTT
* * *
52454278 GACCCTAAAACTTTCAAAAATTACATTTT
1 GACCCCAAAATTTTCCAAAATTACATTTT
* * *
52454307 TACCCCAAAAATTTCCTAAAT
1 GACCCCAAAATTTTCCAAAAT
52454328 CCCATTTTTA
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
29 62 0.53
30 47 0.40
31 8 0.07
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (29 bp):
GACCCCAAAATTTTCCAAAATTACATTTT
Found at i:52454355 original size:59 final size:58
Alignment explanation
Indices: 52454292--52454488 Score: 193
Period size: 59 Copynumber: 3.4 Consensus size: 58
52454282 CTAAAACTTT
* *
52454292 CAAAAATTA-CATTTTTACCCCAAAAATTTCCTAAATCCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCA-TTTTACCCCAAAAATTT-CTAAATTCCATTTTTAACCCCGATTTCAC
* ** ** *
52454351 CAAAATTTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCAAAAATTTCT-AAATTCCATTTTTAACCCCGATTTCAC
** ** * *
52454410 TGAAAATTACCATTTTACCCCCGAAACCTTT-AAAATTCCATTTTAAACCCCGATTTCAC
1 CAAAAATTACCATTTTA-CCCC-AAAAATTTCTAAATTCCATTTTTAACCCCGATTTCAC
*
52454469 C-AAAATTACCATTTTGCCCC
1 CAAAAATTACCATTTTACCCC
52454489 CGGGTATCCA
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
57 4 0.04
58 16 0.14
59 84 0.74
60 6 0.05
61 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCAAAAATTTCTAAATTCCATTTTTAACCCCGATTTCAC
Found at i:52454460 original size:30 final size:28
Alignment explanation
Indices: 52454360--52454454 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 28
52454350 CCAAAATTTA
*
52454360 CCATTTTACCCCCG-AAGCTTCTAAAATT
1 CCATTTTACCCCCGAAACCTT-TAAAATT
* ** * *
52454388 CCATTTTTAACCCCGATTTCATTGAAAATT
1 CCA-TTTTACCCCCGA-AACCTTTAAAATT
52454418 ACCATTTTACCCCCGAAACCTTTAAAATT
1 -CCATTTTACCCCCGAAACCTTTAAAATT
52454447 CCATTTTA
1 CCATTTTA
52454455 AACCCCGATT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
28 11 0.21
29 19 0.37
30 17 0.33
31 5 0.10
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (28 bp):
CCATTTTACCCCCGAAACCTTTAAAATT
Found at i:52454481 original size:30 final size:29
Alignment explanation
Indices: 52454333--52454483 Score: 103
Period size: 30 Copynumber: 5.1 Consensus size: 29
52454323 TAAATCCCAT
*
52454333 TTTTAACCTCGATTTCACCAAAATTTACCA
1 TTTTAACCCCGATTTCACCAAAA-TTACCA
* * *
52454363 TTTTACCCCCGAAGCTT--CTAAAATT-CCA
1 TTTTAACCCCG-A-TTTCACCAAAATTACCA
**
52454391 TTTTTAACCCCGATTTCATTGAAAATTACCA
1 -TTTTAACCCCGATTTCA-CCAAAATTACCA
* *** ***
52454422 TTTTACCCCCGAAACCTTTAAAATT-CCA
1 TTTTAACCCCGATTTCACCAAAATTACCA
52454450 TTTTAAACCCCGATTTCACCAAAATTACCA
1 TTTT-AACCCCGATTTCACCAAAATTACCA
52454480 TTTT
1 TTTT
52454484 GCCCCCGGGT
Statistics
Matches: 91, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
27 2 0.02
28 11 0.12
29 33 0.36
30 39 0.43
31 4 0.04
32 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACCAAAATTACCA
Found at i:52457008 original size:21 final size:24
Alignment explanation
Indices: 52456963--52457018 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 24
52456953 GGGTCCCAAT
52456963 TTTTTAATTTTATTATTATAATATA
1 TTTTTAATTTTATTATTAT-ATATA
52456988 TTTTT-ATTTTATT-TTAT-TATA
1 TTTTTAATTTTATTATTATATATA
52457009 TTTTATAATT
1 TTTT-TAATT
52457019 ATTTTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.28
22 1 0.03
23 7 0.24
24 8 0.28
25 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTAATTTTATTATTATATATA
Found at i:52457020 original size:21 final size:21
Alignment explanation
Indices: 52456973--52457025 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
52456963 TTTTTAATTT
*
52456973 TATTATTATAATATATTTTTA
1 TATTATTTTAATATATTTTTA
* *
52456994 TTTTATTTTATTATA-TTTTA
1 TATTATTTTAATATATTTTTA
52457014 TAATTATTTTAA
1 T-ATTATTTTAA
52457026 AAGGGATCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTATTTTAATATATTTTTA
Found at i:52462055 original size:15 final size:16
Alignment explanation
Indices: 52462025--52462063 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
52462015 TAATAAAAAT
52462025 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
52462042 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
52462057 ATAATTT
1 ATAATTT
52462064 TTAAATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:52467439 original size:16 final size:15
Alignment explanation
Indices: 52467418--52467447 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52467408 TGCTTGGTAA
52467418 GAAAGAAAAGTAAGAG
1 GAAAGAAAA-TAAGAG
52467434 GAAAGAAAATAAGA
1 GAAAGAAAATAAGA
52467448 AAGATTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
GAAAGAAAATAAGAG
Found at i:52473364 original size:14 final size:13
Alignment explanation
Indices: 52473338--52473362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52473328 TCACCATAAA
52473338 ACGTTTTAAAAAT
1 ACGTTTTAAAAAT
52473351 ACGTTTTAAAAA
1 ACGTTTTAAAAA
52473363 ATTTGGTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
ACGTTTTAAAAAT
Found at i:52474260 original size:58 final size:60
Alignment explanation
Indices: 52474194--52474419 Score: 245
Period size: 59 Copynumber: 3.9 Consensus size: 60
52474184 AGAAAATTTG
* *
52474194 GGGTTAAAAATGAG-ATTTTGGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTAAAATC-
1 GGGTCAAAAATGAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTAAAATCA
* * * * *
52474252 GGGTTAAAAATG-GGATTTT-GAAAATTTGGGGGTAAAATGGTAATTTTTGG-AGAAATCA
1 GGGTCAAAAATGAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTA-AAATCA
* * * * *
52474310 AGGTCAAAAATG-GAATTTTGGAAAGTTCAAAGGTAAAATGGTAATTTTCT-ATGAAATCA
1 GGGTCAAAAATGAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTT-TGGTAAAATCA
*
52474369 GGGTCAAAAA-CAGAATTTTGGAAAGTTC-AGGGGTAAAATGGTAATTTTTGG
1 GGGTCAAAAATGAGAATTTTGGAAAGTTCGA-GGGTAAAATGGTAATTTTTGG
52474420 ATAGTTTAGG
Statistics
Matches: 141, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
57 33 0.23
58 35 0.25
59 71 0.50
60 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (60 bp):
GGGTCAAAAATGAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTAAAATCA
Found at i:52474328 original size:29 final size:30
Alignment explanation
Indices: 52474285--52474378 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 30
52474275 ATTTGGGGGT
52474285 AAAATGGTAATTTTTGGAGAAATCAAGGTCA
1 AAAATGGTAA-TTTTGGAGAAATCAAGGTCA
*
52474316 AAAATGG-AATTTTGGA-AAGTTCAAAGGT--
1 AAAATGGTAATTTTGGAGAA-ATC-AAGGTCA
** *
52474344 AAAATGGTAATTTTCTATGAAATCAGGGTCA
1 AAAATGGTAATTTTGGA-GAAATCAAGGTCA
52474375 AAAA
1 AAAA
52474379 CAGAATTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
28 9 0.18
29 20 0.39
30 9 0.18
31 13 0.25
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAGAAATCAAGGTCA
Found at i:52474420 original size:30 final size:29
Alignment explanation
Indices: 52474119--52474432 Score: 113
Period size: 30 Copynumber: 10.7 Consensus size: 29
52474109 AAAAAAATGA
*
52474119 AATTTTGGAAAGTT-TGGGGTAAAATGGT
1 AATTTTGGAAAGTTCAGGGGTAAAATGGT
* ** *
52474147 AATTTTTGAAAAGTTTGGGGGCAAAAAT-GT
1 AA-TTTTGGAAAGTTCAGGGG-TAAAATGGT
* * *
52474177 AATCTTGAGAAAATT-TGGGGTTAAAAAT-G-
1 AATTTTG-GAAAGTTCAGGGG-T-AAAATGGT
*
52474206 AGATTTTGGAAGGTTC-GAGGGTAAAATGGT
1 A-ATTTTGGAAAGTTCAG-GGGTAAAATGGT
* *
52474236 AATTTTTGGTAAA-ATC-GGGTTAAAAATGG-
1 AA-TTTTGG-AAAGTTCAGGGGT-AAAATGGT
* * **
52474265 GATTTT-GAAAATTTGGGGGTAAAATGGT
1 AATTTTGGAAAGTTCAGGGGTAAAATGGT
* *
52474293 AATTTTTGGAGAA-ATCA-AGGTCAAAAATGG-
1 AA-TTTTGGA-AAGTTCAGGGGT--AAAATGGT
**
52474323 AATTTTGGAAAGTTCAAAGGTAAAATGGT
1 AATTTTGGAAAGTTCAGGGGTAAAATGGT
* **
52474352 AATTTTCTATGAAA--TCA-GGGTCAAAAACAG-
1 AA-TTT-T-GGAAAGTTCAGGGGT--AAAATGGT
52474382 AATTTTGGAAAGTTCAGGGGTAAAATGGT
1 AATTTTGGAAAGTTCAGGGGTAAAATGGT
* *
52474411 AATTTTTGGATAGTTTAGGGGT
1 AA-TTTTGGAAAGTTCAGGGGT
52474433 CTATAGAGAA
Statistics
Matches: 218, Mismatches: 34, Indels: 66
0.69 0.11 0.21
Matches are distributed among these distances:
26 3 0.01
27 13 0.06
28 31 0.14
29 63 0.29
30 82 0.38
31 22 0.10
32 4 0.02
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.32
Consensus pattern (29 bp):
AATTTTGGAAAGTTCAGGGGTAAAATGGT
Found at i:52488733 original size:32 final size:32
Alignment explanation
Indices: 52488670--52488736 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
52488660 GATAAAAATG
* ** ***
52488670 TAATTTATCAATTTAATATTTTATTTTTTTTA
1 TAATTTATCAATTTAAGATTAAATCAATTTTA
52488702 TAATTTATCAATTTAAGATTAAATCAATTTTA
1 TAATTTATCAATTTAAGATTAAATCAATTTTA
52488734 TAA
1 TAA
52488737 CTTCAATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (32 bp):
TAATTTATCAATTTAAGATTAAATCAATTTTA
Found at i:52494858 original size:7 final size:7
Alignment explanation
Indices: 52494846--52494872 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
52494836 AACATCAACA
52494846 TCACAAT
1 TCACAAT
52494853 TCACAAT
1 TCACAAT
52494860 TCACAAT
1 TCACAAT
52494867 TCACAA
1 TCACAA
52494873 GCCAGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (7 bp):
TCACAAT
Found at i:52497957 original size:12 final size:12
Alignment explanation
Indices: 52497942--52497967 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52497932 CATACAATCC
52497942 TTCAATTGAAAT
1 TTCAATTGAAAT
52497954 TTCAATTGAAAT
1 TTCAATTGAAAT
52497966 TT
1 TT
52497968 TTGCTTATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTCAATTGAAAT
Found at i:52499887 original size:17 final size:17
Alignment explanation
Indices: 52499867--52499909 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
52499857 ATTATTTAAA
52499867 TTAACTAAATTAATTTT-
1 TTAACTAAA-TAATTTTC
*
52499884 TTAATTAAATAATTTTC
1 TTAACTAAATAATTTTC
52499901 TTAAACTAA
1 TT-AACTAA
52499910 TTTTTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAACTAAATAATTTTC
Found at i:52504382 original size:29 final size:27
Alignment explanation
Indices: 52504341--52504395 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
52504331 ATCAATTTGA
52504341 CAAAAAAAAATTAAGGGCCAAAGTGAG
1 CAAAAAAAAATTAAGGGCCAAAGTGAG
*
52504368 CAAAAAAAACTATTAAGGGTCAAAGTGA
1 CAAAAAAAA--ATTAAGGGCCAAAGTGA
52504396 CTAAACATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.36
29 16 0.64
ACGTcount: A:0.55, C:0.11, G:0.20, T:0.15
Consensus pattern (27 bp):
CAAAAAAAAATTAAGGGCCAAAGTGAG
Found at i:52504779 original size:6 final size:7
Alignment explanation
Indices: 52504743--52504794 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
52504733 TATCATTTAG
*
52504743 TTTGGTT
1 TTTGATT
52504750 TTTGATT
1 TTTGATT
* *
52504757 TTTTAAT
1 TTTGATT
* *
52504764 ATTAATT
1 TTTGATT
52504771 TTTGATT
1 TTTGATT
52504778 TTTGATT
1 TTTGATT
52504785 TTTGATT
1 TTTGATT
52504792 TTT
1 TTT
52504795 AAACTTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (7 bp):
TTTGATT
Found at i:52505726 original size:21 final size:19
Alignment explanation
Indices: 52505696--52505734 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
52505686 ATACTTATAA
52505696 TAAAAGTATTAATATATACT
1 TAAAAGTATTAATA-ATACT
*
52505716 TAAAATGTATTTATAATAC
1 TAAAA-GTATTAATAATAC
52505735 ACATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
TAAAAGTATTAATAATACT
Found at i:52518345 original size:150 final size:152
Alignment explanation
Indices: 52518074--52518526 Score: 694
Period size: 153 Copynumber: 3.0 Consensus size: 152
52518064 CAAGGTGTCA
* * *
52518074 GATGTTGGTTGGGATGCTTTATCTGGATGGAATAAAAATGCTGAGGATGTTGACAAATTTGCAGC
1 GATGTTGGTTGGGATGCTTTGTCTGGATGGAATAAAAATGCAGAGGATGGTGACAAATTTGCAGC
* * * *
52518139 AGCTGCGACCAGTTCGGAGAAGCAAAATGAGTGGTCTGGTTGGGGGGCGAGCAAATCTGAATCAC
66 AGCTGCAACCAGTTCGAAGAAGCAAAATGAGTGGTCTGATTGGGGGGCGAGCAAATCTAAATCAC
52518204 AAG-T-TGTCTCTCCAAAAGTG
131 AAGATGTGTCTCTCCAAAAGTG
*
52518224 GATGTTGGTTGGGATGCTTTGTCTGGATGGAATAAAATTGCAGAGGATGGTGACAAATTTGCAGC
1 GATGTTGGTTGGGATGCTTTGTCTGGATGGAATAAAAATGCAGAGGATGGTGACAAATTTGCAGC
* *
52518289 TGCTGCAACCAGTTCGAAGAAGCAAAATGAGTGGTCTGATTGGGGGGCGAGAAAATCTAAATCAC
66 AGCTGCAACCAGTTCGAAGAAGCAAAATGAGTGGTCTGATTGGGGGGCGAGCAAATCTAAATCAC
*
52518354 AAGATGCTGTTTCTCCAAAAGTG
131 AAGATG-TGTCTCTCCAAAAGTG
* * * *
52518377 GATGTTGGTTGGGATGCCTTGTCTGGGTGGAATAAAAATGCAGAGGATAGTGACAATTTTGCAGC
1 GATGTTGGTTGGGATGCTTTGTCTGGATGGAATAAAAATGCAGAGGATGGTGACAAATTTGCAGC
* * * **
52518442 AGCTGCATCCAGTTCAAAGAAGCAAAGTGAGTGGTCTGATTGGGGGATGAGCAAATCTAAATCAC
66 AGCTGCAACCAGTTCGAAGAAGCAAAATGAGTGGTCTGATTGGGGGGCGAGCAAATCTAAATCAC
52518507 AAGATGATGTCTCTCCAAAA
131 AAGATG-TGTCTCTCCAAAA
52518527 ACGGATGGAA
Statistics
Matches: 275, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
150 123 0.45
151 1 0.00
153 151 0.55
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (152 bp):
GATGTTGGTTGGGATGCTTTGTCTGGATGGAATAAAAATGCAGAGGATGGTGACAAATTTGCAGC
AGCTGCAACCAGTTCGAAGAAGCAAAATGAGTGGTCTGATTGGGGGGCGAGCAAATCTAAATCAC
AAGATGTGTCTCTCCAAAAGTG
Found at i:52519162 original size:36 final size:36
Alignment explanation
Indices: 52519079--52519288 Score: 204
Period size: 36 Copynumber: 5.8 Consensus size: 36
52519069 CTGGAGTAAG
* * ** **
52519079 AATAGTGCTTGGGATCAACAAAAGTCACAGACAATG
1 AATAGTTCTTGGGACCAACAAAAGTCACCTACAACA
* * * *
52519115 AATAATGCTTGGGACCAACAAAAATCACCTGCAACA
1 AATAGTTCTTGGGACCAACAAAAGTCACCTACAACA
** * * ***
52519151 AATAGTTCTTGGGACCGGCAAAAATCATCTACGGTA
1 AATAGTTCTTGGGACCAACAAAAGTCACCTACAACA
* * *
52519187 AATAATTCTTGGGACCAACAAAAGCCACCTACAGCA
1 AATAGTTCTTGGGACCAACAAAAGTCACCTACAACA
* **
52519223 AATAGTTCTTGGGACCAAGAAAAGTCACCTACAATG
1 AATAGTTCTTGGGACCAACAAAAGTCACCTACAACA
*
52519259 AATAGTTCATGGGACCAACAAAAGTCACCT
1 AATAGTTCTTGGGACCAACAAAAGTCACCT
52519289 GAATGTTCAC
Statistics
Matches: 141, Mismatches: 33, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 141 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (36 bp):
AATAGTTCTTGGGACCAACAAAAGTCACCTACAACA
Found at i:52519198 original size:72 final size:72
Alignment explanation
Indices: 52519079--52519289 Score: 226
Period size: 72 Copynumber: 2.9 Consensus size: 72
52519069 CTGGAGTAAG
* * * * ** * * *
52519079 AATAGTGCTTGGGATCAACAAAAGTCACAGACAATGAATAATGCTTGGGACCAACAAAAATCACC
1 AATAGTTCTTGGGACCAAGAAAAATCACCTACAATAAATAATTCTTGGGACCAACAAAAGTCACC
52519144 TGCAACA
66 TGCAACA
* * ** *
52519151 AATAGTTCTTGGGACC-GGCAAAAATCATCTACGGTAAATAATTCTTGGGACCAACAAAAGCCAC
1 AATAGTTCTTGGGACCAAG-AAAAATCACCTACAATAAATAATTCTTGGGACCAACAAAAGTCAC
* *
52519215 CTACAGCA
65 CTGCAACA
* * * *
52519223 AATAGTTCTTGGGACCAAGAAAAGTCACCTACAATGAATAGTTCATGGGACCAACAAAAGTCACC
1 AATAGTTCTTGGGACCAAGAAAAATCACCTACAATAAATAATTCTTGGGACCAACAAAAGTCACC
52519288 TG
66 TG
52519290 AATGTTCACA
Statistics
Matches: 111, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
72 110 0.99
73 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (72 bp):
AATAGTTCTTGGGACCAAGAAAAATCACCTACAATAAATAATTCTTGGGACCAACAAAAGTCACC
TGCAACA
Found at i:52521490 original size:42 final size:42
Alignment explanation
Indices: 52521387--52521592 Score: 265
Period size: 42 Copynumber: 5.0 Consensus size: 42
52521377 TTTCAAAAAA
* * * *
52521387 TCTCGAGGGAACCGCGACCGAAGTGTTGCTCCAGA-G--AAT
1 TCTCAAGGGAACCGCGACCAAAGTGTTGCTCAAGATGATAAC
* * *
52521426 TCTCAAGGGATCCGTGACCAAAGCGTTGCTCAAGATGATAAC
1 TCTCAAGGGAACCGCGACCAAAGTGTTGCTCAAGATGATAAC
* *
52521468 TCTGAAGGGAACCGCGATCAAAGTGTTGCTCAAGATGATAAC
1 TCTCAAGGGAACCGCGACCAAAGTGTTGCTCAAGATGATAAC
*
52521510 TCTCAAGGGAACCGCGACCGAAGTGTTGCTCAAGATGATAAC
1 TCTCAAGGGAACCGCGACCAAAGTGTTGCTCAAGATGATAAC
* * * *
52521552 TCTCAAGGGAACCGTGATCAAAGTGTTGCTGAAGACGATAA
1 TCTCAAGGGAACCGCGACCAAAGTGTTGCTCAAGATGATAA
52521593 TGAGGGGGGG
Statistics
Matches: 144, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 29 0.20
40 1 0.01
42 114 0.79
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (42 bp):
TCTCAAGGGAACCGCGACCAAAGTGTTGCTCAAGATGATAAC
Found at i:52522809 original size:30 final size:30
Alignment explanation
Indices: 52522768--52522839 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
52522758 CGTTAACAAC
* **
52522768 AATTTTTATTTTAATTGCCTAACTTTAATA
1 AATTTTCATTTTAATCACCTAACTTTAATA
* *
52522798 AATTTTCATTTTAATCACTTAATTTTAATA
1 AATTTTCATTTTAATCACCTAACTTTAATA
52522828 AATTTTCATTTT
1 AATTTTCATTTT
52522840 GATTATGCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (30 bp):
AATTTTCATTTTAATCACCTAACTTTAATA
Found at i:52522812 original size:16 final size:16
Alignment explanation
Indices: 52522791--52522839 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
52522781 ATTGCCTAAC
52522791 TTTAATAAATTTTCAT
1 TTTAATAAATTTTCAT
* * *
52522807 TTTAAT-CA-CTTAAT
1 TTTAATAAATTTTCAT
52522821 TTTAATAAATTTTCAT
1 TTTAATAAATTTTCAT
52522837 TTT
1 TTT
52522840 GATTATGCGA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 13 0.52
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATAAATTTTCAT
Found at i:52523408 original size:22 final size:21
Alignment explanation
Indices: 52523356--52523400 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
52523346 AATTTTATGT
* *
52523356 AAAAAAT-CAATTCATTTTGG
1 AAAAAATAAAATTAATTTTGG
*
52523376 AAAAAATAAAATTAATTTTTG
1 AAAAAATAAAATTAATTTTGG
52523397 AAAA
1 AAAA
52523401 GATGAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAAATAAAATTAATTTTGG
Found at i:52529429 original size:2 final size:2
Alignment explanation
Indices: 52529424--52529456 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52529414 GATATATGTT
52529424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52529457 GTATGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52535405 original size:15 final size:15
Alignment explanation
Indices: 52535368--52535406 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
52535358 TGATCATGAG
*
52535368 TAAATTAAAATTGAT
1 TAAATTAGAATTGAT
52535383 TAAATTAGAATTGAT
1 TAAATTAGAATTGAT
52535398 TAAATTAGA
1 TAAATTAGA
52535407 GTATAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (15 bp):
TAAATTAGAATTGAT
Found at i:52562328 original size:23 final size:24
Alignment explanation
Indices: 52562283--52562339 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
52562273 GTTCGAATAA
* *
52562283 TATTTGTGAACATATTCGCTTAT-
1 TATTCGTGAACATATTCACTTATG
*
52562306 TATTCGTGAACATATTCATTTATG
1 TATTCGTGAACATATTCACTTATG
*
52562330 TATTCATGAA
1 TATTCGTGAA
52562340 TATTAAACGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (24 bp):
TATTCGTGAACATATTCACTTATG
Found at i:52564801 original size:19 final size:20
Alignment explanation
Indices: 52564777--52564814 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52564767 TTATTAATAC
*
52564777 ATATTTTTAAAAAT-TTATT
1 ATATTTTAAAAAATATTATT
52564796 ATATTTTAAAAAATATTAT
1 ATATTTTAAAAAATATTAT
52564815 AAATTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTAAAAAATATTATT
Found at i:52564812 original size:17 final size:18
Alignment explanation
Indices: 52564781--52564815 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52564771 TAATACATAT
*
52564781 TTTTAAAAATTTATTATA
1 TTTTAAAAATATATTATA
52564799 TTTTAAAAA-ATATTATA
1 TTTTAAAAATATATTATA
52564816 AATTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATATTATA
Found at i:52564820 original size:19 final size:19
Alignment explanation
Indices: 52564779--52564820 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
52564769 ATTAATACAT
* *
52564779 ATTTTTAAAAATTTATTAT
1 ATTTTAAAAAATTTATTAA
52564798 ATTTTAAAAAATATTA-TAA
1 ATTTTAAAAAAT-TTATTAA
52564817 ATTT
1 ATTT
52564821 AATATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTAAAAAATTTATTAA
Found at i:52570303 original size:22 final size:23
Alignment explanation
Indices: 52570270--52570315 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
52570260 TAAGAAAATG
52570270 AGTTACAAATAATTAAATT-CAA
1 AGTTACAAATAATTAAATTGCAA
*
52570292 AGTTA-AATATAATTACATTGCAA
1 AGTTACAA-ATAATTAAATTGCAA
52570315 A
1 A
52570316 TATTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 15 0.71
23 4 0.19
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (23 bp):
AGTTACAAATAATTAAATTGCAA
Found at i:52577285 original size:26 final size:25
Alignment explanation
Indices: 52577255--52577310 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
52577245 TCAGTTTATA
*
52577255 TTTTTAAAAATTAATTTTA-TTCTTT
1 TTTTTTAAAATTAATTTTAGTT-TTT
* *
52577280 TTTTTTAGAATTGATTTTAGTTTTT
1 TTTTTTAAAATTAATTTTAGTTTTT
52577305 TTTTTT
1 TTTTTT
52577311 CAGTAAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (25 bp):
TTTTTTAAAATTAATTTTAGTTTTT
Found at i:52577373 original size:21 final size:21
Alignment explanation
Indices: 52577322--52577392 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
52577312 AGTAAAAGGG
* *
52577322 AAAACATGGGGTTTTATAGAGA
1 AAAACTTGGGTTTTTATAG-GA
*
52577344 ACTAACTTGGGTTTTTATAGGA
1 A-AAACTTGGGTTTTTATAGGA
* *
52577366 AAAACTTGGATTTTTACAGGGA
1 AAAACTTGGGTTTTTATA-GGA
52577388 AAAAC
1 AAAAC
52577393 CATTTTATCC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 14 0.34
22 12 0.29
23 15 0.37
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (21 bp):
AAAACTTGGGTTTTTATAGGA
Found at i:52577388 original size:22 final size:21
Alignment explanation
Indices: 52577347--52577392 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
52577337 ATAGAGAACT
* *
52577347 AACTTGGGTTTTTATAGGAAA
1 AACTTGGATTTTTACAGGAAA
52577368 AACTTGGATTTTTACAGGGAAA
1 AACTTGGATTTTTACA-GGAAA
52577390 AAC
1 AAC
52577393 CATTTTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (21 bp):
AACTTGGATTTTTACAGGAAA
Found at i:52577904 original size:3 final size:3
Alignment explanation
Indices: 52577896--52577926 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
52577886 AAAATGTGCC
52577896 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
52577927 TAAAACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:52583806 original size:26 final size:25
Alignment explanation
Indices: 52583754--52583809 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
52583744 AAATAACCAA
52583754 AGAAGAAATAAAAGGATGAAAGTGT
1 AGAAGAAATAAAAGGATGAAAGTGT
* *
52583779 AGAAGAAACTAAAATGATAGAGAG-GT
1 AGAAGAAA-TAAAAGGAT-GAAAGTGT
52583805 AGAAG
1 AGAAG
52583810 GTTGAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 15 0.56
27 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.29, T:0.14
Consensus pattern (25 bp):
AGAAGAAATAAAAGGATGAAAGTGT
Found at i:52586604 original size:34 final size:34
Alignment explanation
Indices: 52586561--52586629 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
52586551 CCTTTCAAAA
* *
52586561 ATACTAATATCGTTTTTTAACAGAAATGCTGACT
1 ATACTAATATCATTTTTTAACAAAAATGCTGACT
52586595 ATACTAATATCATTTTTTAACAAAAATGCTGACT
1 ATACTAATATCATTTTTTAACAAAAATGCTGACT
52586629 A
1 A
52586630 AAGCACTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (34 bp):
ATACTAATATCATTTTTTAACAAAAATGCTGACT
Found at i:52586647 original size:32 final size:33
Alignment explanation
Indices: 52586563--52586647 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 33
52586553 TTTCAAAAAT
* * *
52586563 ACTAATATCGTTTTTTAACAGAAATGCTGACTAT
1 ACTAATA-CATTTTTTAACAAAAATGCTGACTAA
52586597 ACTAATATCATTTTTTAACAAAAATGCTGACTAA
1 ACTAATA-CATTTTTTAACAAAAATGCTGACTAA
*
52586631 AGC-ACTA-ATTTTTTAAC
1 A-CTAATACATTTTTTAAC
52586648 GATATTAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 10 0.22
34 35 0.76
35 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (33 bp):
ACTAATACATTTTTTAACAAAAATGCTGACTAA
Found at i:52586760 original size:16 final size:15
Alignment explanation
Indices: 52586739--52586768 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
52586729 AAATAATTTA
52586739 AAAATTATAAAAAATT
1 AAAATTA-AAAAAATT
52586755 AAAATTAAAAAAAT
1 AAAATTAAAAAAAT
52586769 ATATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATTAAAAAAATT
Found at i:52586765 original size:24 final size:26
Alignment explanation
Indices: 52586738--52586799 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 26
52586728 TAAATAATTT
52586738 AAAAAT-TATAAAAAATTAAAATTAA
1 AAAAATATATAAAAAATTAAAATTAA
*
52586763 AAAAATATATAAATAATTCATAAAAATTAA
1 AAAAATATATAAA-AA---ATTAAAATTAA
52586793 AAAAATA
1 AAAAATA
52586800 GTATGAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 6 0.19
26 6 0.19
27 2 0.06
30 17 0.55
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAAATATATAAAAAATTAAAATTAA
Found at i:52589956 original size:59 final size:57
Alignment explanation
Indices: 52589876--52590073 Score: 180
Period size: 59 Copynumber: 3.3 Consensus size: 57
52589866 GGGTTTTTAT
* *
52589876 GGGTAAAATGGTAATATTTTTGTGAAATCGGGGGCAAAAAATGGAATTTGGAAAGTTTGG
1 GGGTAAAATGGTAA-ATTTTGGTGAAATC-GGGAC-AAAAATGGAATTTGGAAAGTTTGG
* * * * * *
52589936 GGAGTAAAATGGTAAATTTTGGTAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCGG
1 GG-GTAAAATGGTAAATTTTGGTGAAATC-GGGACAAAAATGGAA-TTTGGAAAGTTTGG
* * * * * * *
52589996 AGGCAAAACGGTAAGTTTTGGTGAAATCGGGATTAAAAATGGGATTTAGGGAAGTTTGG
1 GGGTAAAATGGTAAATTTTGGTGAAATCGGGA-CAAAAATGGAATTT-GGAAAGTTTGG
*
52590055 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAAATTTT
52590074 AAAAGTTTCG
Statistics
Matches: 109, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
58 5 0.05
59 62 0.57
60 30 0.28
61 12 0.11
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.29
Consensus pattern (57 bp):
GGGTAAAATGGTAAATTTTGGTGAAATCGGGACAAAAATGGAATTTGGAAAGTTTGG
Found at i:52590108 original size:30 final size:30
Alignment explanation
Indices: 52590055--52590344 Score: 354
Period size: 30 Copynumber: 9.7 Consensus size: 30
52590045 GGAAGTTTGG
* **
52590055 GGGT-AAAATGGTAATTTT-TAAAAGTTTCG
1 GGGTCAAAAT-GTAATTTTAGAAAAGTTTTA
* *
52590084 GGGTCAAAATATAATTTTTGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
* * *
52590114 GGGTTAAAATGTAATTTTGGAAAAGTTTTG
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
*
52590144 GGGTCAAAATGTAATTTT-GGAAAGTTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
* * * *
52590173 AGGTTAAAATGTAATTTAAGAAAAATTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
52590203 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
*
52590233 GGGTCAAAATGTAATTTTGGAAAAGTTTT-
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
* * * * *
52590262 GAGGTTAAACTATAATTTTGGAAAAGTTTTG
1 G-GGTCAAAATGTAATTTTAGAAAAGTTTTA
52590293 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
52590323 GGGTCAAAATGTAATTTCTAGA
1 GGGTCAAAATGTAATTT-TAGA
52590345 CAATTTAAGG
Statistics
Matches: 226, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
29 36 0.16
30 185 0.82
31 5 0.02
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTTA
Found at i:52590121 original size:89 final size:89
Alignment explanation
Indices: 52590028--52590339 Score: 335
Period size: 89 Copynumber: 3.5 Consensus size: 89
52590018 GAAATCGGGA
** * * * * * *
52590028 TTAAAAATGGGATTTAGGGAAGTTTGGGGGT-AAAATGGTAATTTTTAAAAGTTTCGGGGTCAAA
1 TTAAAAATGTAATTTAGGAAAGTTTTGGGGTCAAAAT-GTAATTTTGAAAAGTTTTGAGGTTAAA
*
52590092 ATATAATTTTTGAAAAGTTTTAGGG
65 ATATAATTTTAGAAAAGTTTTAGGG
* * *
52590117 TT-AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAGTTTTAAGGTTAAA
1 TTAAAAATGTAATTTAGG-AAAGTTTTGGGGTCAAAATGTAATTTTGAAAAGTTTTGAGGTTAAA
* * *
52590181 ATGTAATTTAAGAAAAATTTTAGGG
65 ATATAATTTTAGAAAAGTTTTAGGG
* * *
52590206 -TCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTTGAGGTTAA
1 TTAAAAATGTAA-TTTAGGAAAGTTTTGGGGTCAAAATGTAATTTT-GAAAAGTTTTGAGGTTAA
* *
52590270 ACTATAATTTTGGAAAAGTTTT-GGG
64 AATATAATTTTAGAAAAGTTTTAGGG
* * * *
52590295 GTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTT
1 TTAAAAATGTAA-TTTAGGAAAGTTTTGGGGTCAAAATGTAATTT
52590340 CTAGACAATT
Statistics
Matches: 192, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
88 13 0.07
89 93 0.48
90 86 0.45
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (89 bp):
TTAAAAATGTAATTTAGGAAAGTTTTGGGGTCAAAATGTAATTTTGAAAAGTTTTGAGGTTAAAA
TATAATTTTAGAAAAGTTTTAGGG
Found at i:52592239 original size:17 final size:16
Alignment explanation
Indices: 52592217--52592290 Score: 89
Period size: 17 Copynumber: 4.6 Consensus size: 16
52592207 AATTTTTATT
* *
52592217 TAAATTCAAATTCAAA
1 TAAATTTAAATTTAAA
*
52592233 GTAAATTTAAA--TAAT
1 -TAAATTTAAATTTAAA
52592248 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
52592265 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
52592281 TAAATTTAAA
1 TAAATTTAAA
52592291 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 14 0.28
17 24 0.48
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:52592243 original size:6 final size:6
Alignment explanation
Indices: 52592191--52592290 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
52592181 TTCTTTAATG
* * ** * * *
52592191 TTAAAT TTAGTAT TTTAAT TTTTAT TTAAAT TCAAAT TCAAA- GTAAAT
1 TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
52592239 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
52592286 TTAAA
1 TTAAA
52592291 ATCAATTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
4 4 0.05
5 7 0.09
6 54 0.72
7 4 0.05
8 6 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:52592251 original size:31 final size:31
Alignment explanation
Indices: 52592216--52592300 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 31
52592206 TAATTTTTAT
*
52592216 TTAAATTCAAATTCAAAGTAAATTTAAATAA
1 TTAAATTCAAATTCAAAATAAATTTAAATAA
* *
52592247 TTAAATTTAAATTTAAAATAAATTTAAAT--
1 TTAAATTCAAATTCAAAATAAATTTAAATAA
* *
52592276 TTAAA-T-AAATTTAAAATCAATTTAA
1 TTAAATTCAAATTCAAAATAAATTTAA
52592301 CTCTAAATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.36
28 1 0.02
29 5 0.10
31 26 0.52
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (31 bp):
TTAAATTCAAATTCAAAATAAATTTAAATAA
Found at i:52592307 original size:27 final size:27
Alignment explanation
Indices: 52592254--52592308 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
52592244 TAATTAAATT
*
52592254 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
52592281 TAAATTTAAAATCAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
52592308 T
1 T
52592309 TAAACGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:52593900 original size:80 final size:80
Alignment explanation
Indices: 52593749--52593902 Score: 245
Period size: 80 Copynumber: 1.9 Consensus size: 80
52593739 TGCAAAACCA
* * * *
52593749 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATCCGTTAGGCACTGGGTGCTAGG
1 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTTATCCGCTAGGCACCGGGTGCCAGG
52593814 AATTGACGGACTTTG
66 AATTGACGGACTTTG
* *
52593829 TTGGTTAATCCAACTAGAGCTGGGCTTACTTATCGCGGTTTATCCGCTAGGCACCGGGTGCCATG
1 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTTATCCGCTAGGCACCGGGTGCCAGG
*
52593894 ATTTGACGG
66 AATTGACGG
52593903 GATTTTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (80 bp):
TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTTATCCGCTAGGCACCGGGTGCCAGG
AATTGACGGACTTTG
Found at i:52594635 original size:26 final size:27
Alignment explanation
Indices: 52594578--52594634 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 27
52594568 AATAATTTTC
52594578 AAAAATTTGAAATTTTTATAAAAATTT
1 AAAAATTTGAAATTTTTATAAAAATTT
* *
52594605 TAAAATTT-ATATTTTTA-AAAAATTT
1 AAAAATTTGAAATTTTTATAAAAATTT
52594630 AAAAA
1 AAAAA
52594635 AAATATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 12 0.44
26 8 0.30
27 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AAAAATTTGAAATTTTTATAAAAATTT
Found at i:52594640 original size:24 final size:26
Alignment explanation
Indices: 52594589--52594640 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
52594579 AAAATTTGAA
***
52594589 ATTTTTATAAAAATTTTAAAATTTAT
1 ATTTTTATAAAAATTTTAAAAAAAAT
52594615 ATTTTTA-AAAAA-TTTAAAAAAAAT
1 ATTTTTATAAAAATTTTAAAAAAAAT
52594639 AT
1 AT
52594641 AAAAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 5 0.22
26 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTTATAAAAATTTTAAAAAAAAT
Found at i:52594641 original size:26 final size:26
Alignment explanation
Indices: 52594589--52594641 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
52594579 AAAATTTGAA
* **
52594589 ATTTTTATAAAAATTTTAAAATTTAT
1 ATTTTTATAAAAATTTAAAAAAATAT
52594615 ATTTTTA-AAAAATTTAAAAAAAATAT
1 ATTTTTATAAAAATTT-AAAAAAATAT
52594641 A
1 A
52594642 AAAAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTTTATAAAAATTTAAAAAAATAT
Found at i:52597868 original size:22 final size:22
Alignment explanation
Indices: 52597841--52597885 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
52597831 AGAATAAGAT
52597841 GACAAATTGATTGAGAGGATAA
1 GACAAATTGATTGAGAGGATAA
52597863 GACAAATTGATTGAGAGGATAA
1 GACAAATTGATTGAGAGGATAA
52597885 G
1 G
52597886 TGCTTAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.22
Consensus pattern (22 bp):
GACAAATTGATTGAGAGGATAA
Found at i:52601318 original size:29 final size:30
Alignment explanation
Indices: 52601286--52601361 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 30
52601276 GACCCGCTCA
52601286 TATTGTTTTTAATATTTTAAT-A-TTTATAT
1 TATT-TTTTTAATATTTTAATAATTTTATAT
52601315 TATTTATTTTAATA-TTTAATAATTTTATAT
1 TATTT-TTTTAATATTTTAATAATTTTATAT
* *
52601345 GAATTTTTTATATATTT
1 TATTTTTTTA-ATATTT
52601362 AGTATAGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 7 0.17
29 18 0.45
30 13 0.32
31 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (30 bp):
TATTTTTTTAATATTTTAATAATTTTATAT
Found at i:52601341 original size:21 final size:21
Alignment explanation
Indices: 52601298--52601342 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
52601288 TTGTTTTTAA
*
52601298 TATTTTAATATTTATATTATT
1 TATTTTAATATTTATAATATT
52601319 TATTTTAATATTTAATAAT-TT
1 TATTTTAATATTT-ATAATATT
52601340 TAT
1 TAT
52601343 ATGAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTAATATTTATAATATT
Found at i:52605799 original size:49 final size:49
Alignment explanation
Indices: 52605742--52605838 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
52605732 AATAATAATC
*
52605742 AAAGCACAATCAATCGAAGATATGCTCTCCAAAATTAGCAACAATCTCT
1 AAAGCACAATCAATCGAAGATATGCTCTCCAAAATCAGCAACAATCTCT
*
52605791 AAAGCACAATCAATCTAAGATATGCTCTCCAAAATCAGCAACAATCTC
1 AAAGCACAATCAATCGAAGATATGCTCTCCAAAATCAGCAACAATCTC
52605839 AATCAAATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (49 bp):
AAAGCACAATCAATCGAAGATATGCTCTCCAAAATCAGCAACAATCTCT
Found at i:52606223 original size:25 final size:25
Alignment explanation
Indices: 52606173--52606227 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
52606163 AAATGTGGAC
*
52606173 AAAATAAAATCATAAAACTATAAAT
1 AAAATAAAATCATAAAACAATAAAT
* *
52606198 AAAATAAAGTCATGAAACCAAT-AAT
1 AAAATAAAATCAT-AAAACAATAAAT
52606223 AAAAT
1 AAAAT
52606228 CACAATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (25 bp):
AAAATAAAATCATAAAACAATAAAT
Found at i:52606764 original size:20 final size:21
Alignment explanation
Indices: 52606732--52606771 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
52606722 TCCCTCTCAA
52606732 CAAAAATTACAAAATAATTTC
1 CAAAAATTACAAAATAATTTC
52606753 CAAAAATT-CAAAATAATTT
1 CAAAAATTACAAAATAATTT
52606772 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
CAAAAATTACAAAATAATTTC
Found at i:52606830 original size:20 final size:20
Alignment explanation
Indices: 52606807--52606845 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52606797 ATCAAAATTT
* *
52606807 ATATTTAAAAAATTTAAAAA
1 ATATATAAAAAAGTTAAAAA
52606827 ATATATAAAAAAGTTAAAA
1 ATATATAAAAAAGTTAAAA
52606846 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATATAAAAAAGTTAAAAA
Found at i:52608051 original size:31 final size:30
Alignment explanation
Indices: 52608016--52608094 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 30
52608006 TTTGGGCCCT
52608016 TTAAAAGCTAAAAAAAAATAAATTGGA-CTCC
1 TTAAAAGCTAAAAAAAAAT-AATTGGATC-CC
** **
52608047 TTAAAAATTGAAAAAATAAATTTTTGGATCCC
1 TTAAAAGCT-AAAAAA-AAATAATTGGATCCC
52608079 TTAAAAGCTAAAAAAA
1 TTAAAAGCTAAAAAAA
52608095 TAATTTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
30 1 0.03
31 13 0.33
32 20 0.51
33 5 0.13
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.27
Consensus pattern (30 bp):
TTAAAAGCTAAAAAAAAATAATTGGATCCC
Found at i:52608100 original size:31 final size:31
Alignment explanation
Indices: 52607974--52608130 Score: 108
Period size: 31 Copynumber: 5.0 Consensus size: 31
52607964 TAAATTAGAC
* *
52607974 TTTTGGATCCCTTAAAAATTAAAGAAAAT-TT
1 TTTTGGATCCCTTAAAAACTAAA-AAAATAAT
* *
52608005 TTTTGG-GCCCTTTAAAAGCTAAAAAAA-AAT
1 TTTTGGATCCC-TTAAAAACTAAAAAAATAAT
** * *
52608035 AAATTGGA-CTCCTTAAAAATTGAAAAAATAAAT
1 -TTTTGGATC-CCTTAAAAACTAAAAAAAT-AAT
*
52608068 TTTTGGATCCCTTAAAAGCTAAAAAAATAAT
1 TTTTGGATCCCTTAAAAACTAAAAAAATAAT
* * * *
52608099 TTTT-GAGCCCCTTACAAATTAAAAAAAAAAT
1 TTTTGGA-TCCCTTAAAAACTAAAAAAATAAT
52608130 T
1 T
52608131 CTAAACCCCT
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
30 10 0.10
31 61 0.62
32 23 0.23
33 4 0.04
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (31 bp):
TTTTGGATCCCTTAAAAACTAAAAAAATAAT
Found at i:52617248 original size:11 final size:11
Alignment explanation
Indices: 52617229--52617286 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
52617219 GTTATTATAA
52617229 TATTGTTATTAT
1 TATT-TTATTAT
*
52617241 TTTTTTATTAT
1 TATTTTATTAT
52617252 TATTTTATATAT
1 TATTTTAT-TAT
* * * *
52617264 TATGTAACTCT
1 TATTTTATTAT
52617275 TATTTTATTAT
1 TATTTTATTAT
52617286 T
1 T
52617287 TAAAAATATT
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
11 24 0.69
12 11 0.31
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:52619790 original size:6 final size:6
Alignment explanation
Indices: 52619779--52619803 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52619769 ACCGGCTGAG
52619779 GGTGCA GGTGCA GGTGCA GGTGCA G
1 GGTGCA GGTGCA GGTGCA GGTGCA G
52619804 CAACTTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GGTGCA
Found at i:52622542 original size:2 final size:2
Alignment explanation
Indices: 52622537--52622569 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52622527 AAAGACAATC
52622537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52622570 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52623199 original size:31 final size:31
Alignment explanation
Indices: 52623164--52623231 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
52623154 GAATTTAATT
* *
52623164 TTTATATTTTT-ATTTTTAAAATTTAAGTTTA
1 TTTAT-TTTTTAAATTTTAAAATTTAAATTTA
*
52623195 TTTATTTTTTAAATTTTAAATTTTAAATTTA
1 TTTATTTTTTAAATTTTAAAATTTAAATTTA
52623226 TTTATT
1 TTTATT
52623232 AATATCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (31 bp):
TTTATTTTTTAAATTTTAAAATTTAAATTTA
Found at i:52623471 original size:21 final size:22
Alignment explanation
Indices: 52623430--52623483 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
52623420 AATTGATGAT
*
52623430 ATTATAAAAATTGAGATATTAA
1 ATTATAAAAATTGAAATATTAA
*
52623452 ATTATAAAGATT-AAATATTAA
1 ATTATAAAAATTGAAATATTAA
52623473 ATTATATAAAA
1 ATTATA-AAAA
52623484 ATAAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (22 bp):
ATTATAAAAATTGAAATATTAA
Found at i:52624955 original size:23 final size:23
Alignment explanation
Indices: 52624882--52625078 Score: 152
Period size: 23 Copynumber: 8.5 Consensus size: 23
52624872 TATGCGGAAC
* * *
52624882 AAACAAAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
52624904 -AACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
52624925 GGGCAACAGAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* **
52624951 AAACAGAGAGTACACAAAGTATT
1 AAACAGAGAGCACACAAAGTGCT
*
52624974 AATC-GAAGAGCACACAAAGTGCT
1 AAACAG-AGAGCACACAAAGTGCT
* *
52624997 AATCAGAGAGCACACAAAGTGTT
1 AAACAGAGAGCACACAAAGTGCT
* *
52625020 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
52625043 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
52625068 AAACAGAGAGC
1 AAACAGAGAGC
52625079 GCGCTAGTGT
Statistics
Matches: 142, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
21 16 0.11
22 1 0.01
23 86 0.61
24 3 0.02
25 29 0.20
26 7 0.05
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Done.