Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 53 of 210
Found at i:18679385 original size:14 final size:14
Alignment explanation
Indices: 18679321--18679386 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
18679311 CAACGGAGAG
18679321 AGAAAG-AA-AAGA
1 AGAAAGAAAGAAGA
18679333 GAGAAAGGAGAAG-AGA
1 -AGAAA-GA-AAGAAGA
18679349 AG-AAGAAGAGAAGA
1 AGAAAGAA-AGAAGA
18679363 AG-AAG-AAGAAGA
1 AGAAAGAAAGAAGA
18679375 AGAAAGAAAGAA
1 AGAAAGAAAGAA
18679387 AGAAAAGGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
12 9 0.20
13 13 0.29
14 16 0.36
15 2 0.04
16 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAGAAGA
Found at i:18679565 original size:28 final size:30
Alignment explanation
Indices: 18679523--18679579 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
18679513 TGGATTAGTA
*
18679523 TTTTGTATAAATATTGT-AAATTTTTTTGC
1 TTTTGTATAAATATTGTAAAATTATTTTGC
* *
18679552 TTTT-TATAATTATTTTAAAATTATTTTG
1 TTTTGTATAAATATTGTAAAATTATTTTG
18679580 TTAGCAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTGTATAAATATTGTAAAATTATTTTGC
Found at i:18679626 original size:60 final size:60
Alignment explanation
Indices: 18679558--18679676 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
18679548 TTGCTTTTTA
* * * *
18679558 TAATTATTTTAAAATTATTTTGTTAGCAATTTAGGATTATGTTATAAATTTTTATGTTTG
1 TAATTATTTTAAAATTAATTTATTAGCAATTTAGGATTAAGTTATAAATTGTTATGTTTG
* *
18679618 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGCAATTTAGGATTAAGTTATAAATTGTTATGTTT
18679677 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGCAATTTAGGATTAAGTTATAAATTGTTATGTTTG
Found at i:18680771 original size:27 final size:27
Alignment explanation
Indices: 18680730--18680798 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
18680720 CAGCAGTGGT
*
18680730 GCCTGTCAGACAGGCTCCACCATTGGC
1 GCCTGTCAGATAGGCTCCACCATTGGC
18680757 GCCTGTCAGATAGGCTCCACCATTGGC
1 GCCTGTCAGATAGGCTCCACCATTGGC
18680784 GCCT-TCGAGATAGGC
1 GCCTGTC-AGATAGGC
18680799 GTAACTAGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.20
Consensus pattern (27 bp):
GCCTGTCAGATAGGCTCCACCATTGGC
Found at i:18682434 original size:30 final size:30
Alignment explanation
Indices: 18682398--18682502 Score: 210
Period size: 30 Copynumber: 3.5 Consensus size: 30
18682388 CATGCCGGGT
18682398 AACTAAGTGAGATAGATTTTGAGCAAAAAG
1 AACTAAGTGAGATAGATTTTGAGCAAAAAG
18682428 AACTAAGTGAGATAGATTTTGAGCAAAAAG
1 AACTAAGTGAGATAGATTTTGAGCAAAAAG
18682458 AACTAAGTGAGATAGATTTTGAGCAAAAAG
1 AACTAAGTGAGATAGATTTTGAGCAAAAAG
18682488 AACTAAGTGAGATAG
1 AACTAAGTGAGATAG
18682503 GGTGCCAGTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.23
Consensus pattern (30 bp):
AACTAAGTGAGATAGATTTTGAGCAAAAAG
Found at i:18689263 original size:143 final size:142
Alignment explanation
Indices: 18688992--18689278 Score: 565
Period size: 143 Copynumber: 2.0 Consensus size: 142
18688982 CAAATTGTAG
18688992 AAATAGGTCTTACTTACTTGCACAAAGTTCCATGCCTCTAATATACTGGTCTGATGCTTTTACTT
1 AAATAGGTCTTACTTACTTGCACAAAGTTCCATGCCTCTAATATACTGGTCTGATGCTTTTACTT
18689057 ATGCTGTTAATATAATAAACATCTTACCTTCCAAGGCTATAGATAATAAAACTCCTTTTGAAAAA
66 ATGCTGTTAATATAATAAACATCTTACCTTCCAAGGCTATAGATAATAAAACTCCTTTTGAAAAA
18689122 TTGTATCAAATT
131 TTGTATCAAATT
18689134 AAATAGGTCTTACTTTACTTGCACAAAGTTCCATGCCTCTAATATACTGGTCTGATGCTTTTACT
1 AAATAGGTCTTAC-TTACTTGCACAAAGTTCCATGCCTCTAATATACTGGTCTGATGCTTTTACT
18689199 TATGCTGTTAATATAATAAACATCTTACCTTCCAAGGCTATAGATAATAAAACTCCTTTTGAAAA
65 TATGCTGTTAATATAATAAACATCTTACCTTCCAAGGCTATAGATAATAAAACTCCTTTTGAAAA
18689264 ATTGTATCAAATT
130 ATTGTATCAAATT
18689277 AA
1 AA
18689279 GCCTGATTAC
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
142 13 0.09
143 131 0.91
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (142 bp):
AAATAGGTCTTACTTACTTGCACAAAGTTCCATGCCTCTAATATACTGGTCTGATGCTTTTACTT
ATGCTGTTAATATAATAAACATCTTACCTTCCAAGGCTATAGATAATAAAACTCCTTTTGAAAAA
TTGTATCAAATT
Found at i:18702855 original size:84 final size:84
Alignment explanation
Indices: 18702704--18702862 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
18702694 GGCCCTCCCA
* * * *
18702704 AAAATGAAAATTTTTCATTTTAATCCTCTTATAAATAGAAAAATTATAAATTAATATATAGTGAA
1 AAAATGAAAAATTTTCAATTCAATCCTCTTATAAATAGAAAAATTATAAATTAATATATAGTAAA
18702769 ATTGAACTTTGACCCTCTC
66 ATTGAACTTTGACCCTCTC
* *
18702788 AAAATGAAAAATTTTCAATTCAATCCTCTTATAAATA-AATATATTATAAATTAATATGTAAG-A
1 AAAATGAAAAATTTTCAATTCAATCCTCTTATAAATAGAA-AAATTATAAATTAATATAT-AGTA
*
18702851 AAATTGCACTTT
64 AAATTGAACTTT
18702863 ATCCCCTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
83 2 0.03
84 62 0.94
85 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (84 bp):
AAAATGAAAAATTTTCAATTCAATCCTCTTATAAATAGAAAAATTATAAATTAATATATAGTAAA
ATTGAACTTTGACCCTCTC
Found at i:18705626 original size:16 final size:16
Alignment explanation
Indices: 18705600--18705637 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18705590 AGTAAATTAC
18705600 TAAAA-TTAAAATATT
1 TAAAATTTAAAATATT
* *
18705615 TATAATTTAAAATTTT
1 TAAAATTTAAAATATT
18705631 TAAAATT
1 TAAAATT
18705638 ATATAAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATTTAAAATATT
Found at i:18709601 original size:18 final size:18
Alignment explanation
Indices: 18709580--18709618 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18709570 AACATTAGTC
18709580 TTTATTCATA-ATCTAAAG
1 TTTATT-ATATATCTAAAG
*
18709598 TTTATTGTATATCTAAAG
1 TTTATTATATATCTAAAG
18709616 TTT
1 TTT
18709619 TAATAGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (18 bp):
TTTATTATATATCTAAAG
Found at i:18712340 original size:52 final size:52
Alignment explanation
Indices: 18712262--18712365 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
18712252 ATGAAAGGGG
18712262 TTAAAGAGGCAACAACTCAAACCTTGATTTCAAGTAGTACCAATCCCTTACC
1 TTAAAGAGGCAACAACTCAAACCTTGATTTCAAGTAGTACCAATCCCTTACC
18712314 TTAAAGAGGCAACAACTCAAACCTTGATTTCAAGTAGTACCAATCCCTTACC
1 TTAAAGAGGCAACAACTCAAACCTTGATTTCAAGTAGTACCAATCCCTTACC
18712366 ACTAAGCATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.25
Consensus pattern (52 bp):
TTAAAGAGGCAACAACTCAAACCTTGATTTCAAGTAGTACCAATCCCTTACC
Found at i:18718090 original size:124 final size:124
Alignment explanation
Indices: 18717815--18718100 Score: 464
Period size: 124 Copynumber: 2.3 Consensus size: 124
18717805 ATTTATTAAG
* * * * *
18717815 GAAATCGCTCCTACGTGGACACGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
18717880 GTTTCTGAACAAATAGTATAAAACCGCTTCAAGCAAGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAACAAATAGTATAAAAACGCTTCAAGCAAGATGCTTTATCAGAAGAATTTTT
*
18717939 GAAATCGCTCCCACGTGGACGCTCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
18718004 GTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAACAAATAGTATAAAAACGCTTCAAGCAAGATGCTTTATCAGAAGAATTTTT
* *
18718063 GAAATCGCTCCCACGTGGACGGGCTTTTGCCACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
18718101 CATGTTTGGG
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 149 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAACAAATAGTATAAAAACGCTTCAAGCAAGATGCTTTATCAGAAGAATTTTT
Found at i:18721712 original size:18 final size:18
Alignment explanation
Indices: 18721686--18721728 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18721676 GACTAGAAAA
* * *
18721686 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
18721704 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
18721722 AGGATAC
1 AGGATAC
18721729 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:18722592 original size:20 final size:20
Alignment explanation
Indices: 18722555--18722592 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18722545 ATTATTTTTA
*
18722555 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
18722575 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
18722593 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:18723563 original size:51 final size:51
Alignment explanation
Indices: 18723495--18723594 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
18723485 ATTTAAAAAA
18723495 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAACTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAACTGAGAGCAAATTGAGATT
* * * * *
18723546 AAATATGGG-TTTGAGAGAGATTTGGAAGGAAATTGAGAGGAAATTGAGA
1 AAATA-GGGATTTAAGAGAAATTTAGAAGGAAACTGAGAGCAAATTGAGA
18723595 AAATAATTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 38 0.90
52 4 0.10
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAACTGAGAGCAAATTGAGATT
Found at i:18723604 original size:12 final size:12
Alignment explanation
Indices: 18723587--18723614 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18723577 ATTGAGAGGA
18723587 AATTGAGAAAAT
1 AATTGAGAAAAT
18723599 AATTGAGAAAAT
1 AATTGAGAAAAT
18723611 AATT
1 AATT
18723615 AATTTGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (12 bp):
AATTGAGAAAAT
Found at i:18725431 original size:2 final size:2
Alignment explanation
Indices: 18725424--18725448 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18725414 TAACTTTCAA
18725424 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18725449 CTTTTACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18728680 original size:81 final size:80
Alignment explanation
Indices: 18728578--18728748 Score: 326
Period size: 81 Copynumber: 2.1 Consensus size: 80
18728568 TTTTATATAT
18728578 TATTATTTCTTGTCAATAATCATTTTTTTACTTTTATATAATTTTTAATTTTAGTTTTTAAAAAA
1 TATTATTTCTTGTCAATAATCATTTTTTTACTTTTATATAATTTTTAATTTTAGTTTTTAAAAAA
18728643 TATTTATGTATTTTA
66 TATTTATGTATTTTA
18728658 TATTATTATCTTGTCAATAATCATTTTTTTACTTTTATATAATTTTTAATTTTAGTTTTTAAAAA
1 TATTATT-TCTTGTCAATAATCATTTTTTTACTTTTATATAATTTTTAATTTTAGTTTTTAAAAA
18728723 ATATTTATGTATTTTA
65 ATATTTATGTATTTTA
18728739 TA-TATTTCTT
1 TATTATTTCTT
18728749 TGAATTTTTT
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
79 4 0.04
80 11 0.12
81 75 0.83
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (80 bp):
TATTATTTCTTGTCAATAATCATTTTTTTACTTTTATATAATTTTTAATTTTAGTTTTTAAAAAA
TATTTATGTATTTTA
Found at i:18729022 original size:18 final size:18
Alignment explanation
Indices: 18728990--18729035 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
18728980 ATCATTGATG
18728990 TATACATATAAACTATTAA
1 TATA-ATATAAACTATTAA
* * *
18729009 TATATTATATACTATTTA
1 TATAATATAAACTATTAA
18729027 TATAATATA
1 TATAATATA
18729036 GTAGAAAGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAATATAAACTATTAA
Found at i:18731593 original size:14 final size:15
Alignment explanation
Indices: 18731576--18731605 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18731566 TTATATAAAA
18731576 ATAAAAATAT-ACTT
1 ATAAAAATATAACTT
18731590 ATAAAAATATAACTT
1 ATAAAAATATAACTT
18731605 A
1 A
18731606 ATGTATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAAATATAACTT
Found at i:18734106 original size:42 final size:43
Alignment explanation
Indices: 18734054--18734144 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
18734044 ATCACAAACA
* *
18734054 CCGCTGAAGAGTAAGAGCTTTACCGGCG-CTTTAGTAGAAGCG
1 CCGCTAAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAGCG
* * * * *
18734096 CCGCTAAAGAGTAATACCTTTAGCGGCGTTTTTGGTATAAGCG
1 CCGCTAAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAGCG
18734139 CCGCTA
1 CCGCTA
18734145 TAGACTAGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGAGTAAGACCTTTACCGGCGTCTTTAGTAGAAGCG
Found at i:18734160 original size:43 final size:43
Alignment explanation
Indices: 18734113--18734251 Score: 183
Period size: 43 Copynumber: 3.2 Consensus size: 43
18734103 AGAGTAATAC
*
18734113 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGA-CTAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATC-AGGGT
*
18734156 CTTTAGCGGCGTTTTTGGTAAAAGTGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
* * ***
18734199 CTTTAGTGGCGTTTGTGACCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGGGT
18734242 CTTTAGCGGC
1 CTTTAGCGGC
18734252 ACTTTTCCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
43 81 0.95
44 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:18734267 original size:43 final size:41
Alignment explanation
Indices: 18734137--18734277 Score: 122
Period size: 43 Copynumber: 3.3 Consensus size: 41
18734127 TTGGTATAAG
* ***
18734137 CGCCGCTATAGA-CTAGGGTCTTTAGCGGCGTTTTTGGTAAAA
1 CGCCGCTATAGATC-AGGGTCTTTAGCGGC-CTTTTACCAAAA
* * * *
18734179 GTGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTGTGACCGAAA
1 -CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTT-T-ACCAAAA
*
18734223 CGCCGCTATAGATCAGGGTCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTATAGATCAGGGTCTTTAGCGGC-CTTTTACCA-AAA
*
18734266 CGCCGCAATAGA
1 CGCCGCTATAGA
18734278 CCCTGATCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
42 5 0.06
43 68 0.85
44 7 0.09
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (41 bp):
CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTTTACCAAAA
Found at i:18734292 original size:43 final size:43
Alignment explanation
Indices: 18734245--18734405 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
18734235 TCAGGGTCTT
* *
18734245 TAGCGGCACTTTTCCCACAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCACTTTTACCAAAAACGCCGCTAA-AGACCCTGATCTA
* **** * *
18734288 TAGCGGCGCTTCGGTCACAAACGCCACTAAAGACCCTGATCTA
1 TAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
18734331 TAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCT-AGTCTA
1 TAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTGA-TCTA
* *
18734374 TAGCGGCGCTTATACCAAAAACGCCGCTAAAG
1 TAGCGGCACTTTTACCAAAAACGCCGCTAAAG
18734406 GTATTACTCT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 98 0.97
44 2 0.02
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (43 bp):
TAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:18734310 original size:86 final size:86
Alignment explanation
Indices: 18734220--18734384 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 86
18734210 TTTGTGACCG
* * * * * * *
18734220 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCACTTTTCCCACAAACGCCGC-AATAGACCCT-G
1 AAACGCCACTAAAGACCAGGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAA-AGACCCTAG
18734283 ATCTATAGCGGCGCTTCGGTCAC
65 -TCTATAGCGGCGCTTCGGTCAC
**
18734306 AAACGCCACTAAAGACCCTGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTAGT
1 AAACGCCACTAAAGACCAGGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTAGT
18734371 CTATAGCGGCGCTT
66 CTATAGCGGCGCTT
18734385 ATACCAAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 65 0.96
87 3 0.04
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (86 bp):
AAACGCCACTAAAGACCAGGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTAGT
CTATAGCGGCGCTTCGGTCAC
Found at i:18734396 original size:86 final size:86
Alignment explanation
Indices: 18734245--18734405 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 86
18734235 TCAGGGTCTT
* * * ** *
18734245 TAGCGGCACTTTTCCCACAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGGTCACAAAC
1 TAGCGGCACTTTTACCAAAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTAGACCAAAAAC
18734310 GCCACTAAAGACCCTGATCTA
66 GCCACTAAAGACCCTGATCTA
*
18734331 TAGCGGCACTTTTACCAAAAACGCCGCTAA-AGACCCT-AGTCTATAGCGGCGCTTATACCAAAA
1 TAGCGGCACTTTTACCAAAAACGCCGC-AATAGACCCTGA-TCTATAGCGGCGCTTAGACCAAAA
*
18734394 ACGCCGCTAAAG
64 ACGCCACTAAAG
18734406 GTATTACTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
85 1 0.02
86 62 0.95
87 2 0.03
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (86 bp):
TAGCGGCACTTTTACCAAAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTAGACCAAAAAC
GCCACTAAAGACCCTGATCTA
Found at i:18734422 original size:43 final size:43
Alignment explanation
Indices: 18734332--18734466 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 43
18734322 CCTGATCTAT
* * * * *
18734332 AGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTAGTCTAT-
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCT-TC
* *
18734375 AGCGGCGCTTATACCAAAAACGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
* * * * *
18734418 AGCGGCGCTTCTA-CTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
18734460 AGCGGCG
1 AGCGGCG
18734467 TTTGTGATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 32 0.41
43 46 0.59
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (43 bp):
AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
Found at i:18738171 original size:13 final size:13
Alignment explanation
Indices: 18738153--18738178 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18738143 CATTAGCAGC
18738153 GCTTTAACAAAAA
1 GCTTTAACAAAAA
18738166 GCTTTAACAAAAA
1 GCTTTAACAAAAA
18738179 CGCCGCTAAA
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
GCTTTAACAAAAA
Found at i:18738460 original size:114 final size:113
Alignment explanation
Indices: 18738251--18738554 Score: 284
Period size: 114 Copynumber: 2.7 Consensus size: 113
18738241 TTAACAAAAA
* *
18738251 CGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGCGCTAGTTTTAAGTAGCGGCGCTTT
1 CGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCGCTAGTTTT-AGTAGCGGCGCTTT
*
18738316 TCCAGAAACGCTGCTAAAGACCTAACCATTAGCGGTGCTTTATAGAAAG
65 TCCAGAAACGCCGCTAAAGACCTAACCATTAGCGGTGCTTTATAGAAAG
* * * *
18738365 CGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATTGTTGGGCTTAGTTATT-TTTGCGGCGC-T
1 CGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCGC-TAGTT-TTAGTAGCGGCGCTT
* * ** *
18738428 TTCCTAGAAACGCCGCTAAAG-CCTTGAGCATTAGCGGCAC-TTACT-GAAAAA
64 TTCC-AGAAACGCCGCTAAAGACC-TAACCATTAGCGGTGCTTTA-TAG-AAAG
* * * * * *
18738479 CGCCGCTAAATCACC-GAATGTTGGGGAAACGGCGTCGTTGCGCTAGGTTTT--TTGCGGCGC-T
1 CGCCGCTAAATC-CCTGAAAGCTCGGGAAACGACATCGTTGCGCTA-GTTTTAGTAGCGGCGCTT
*
18738540 TTCTCAAAAACGCCG
64 TTC-CAGAAACGCCG
18738555 GGAATGATTA
Statistics
Matches: 161, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
112 22 0.14
113 16 0.10
114 114 0.71
115 7 0.04
116 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (113 bp):
CGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTGCGCTAGTTTTAGTAGCGGCGCTTTT
CCAGAAACGCCGCTAAAGACCTAACCATTAGCGGTGCTTTATAGAAAG
Found at i:18740002 original size:125 final size:125
Alignment explanation
Indices: 18739780--18740026 Score: 316
Period size: 125 Copynumber: 2.0 Consensus size: 125
18739770 GGATCTAAGT
* * * * *
18739780 AATTTTGAGCGAAAATGTCTTCAAAGAGATAAAAGAGCTATCTCTTAGTTTTGAAACACGCATTG
1 AATTTTGAGCAAAAATATCTTCAAAGAGATAAAAGAGCTATCTATTAGTTTAGAAACACACATTG
* * * ** *
18739845 AATCACTTGATTTTGAGTTTGGAAGCTCAAGTTATGGCCGTGAAGACTTTGCAAGCAAAA
66 AATCACTTAATTTCGAGTTCGGAAGCTCAAGTTATGGCCAAGAAGACTTTACAAGCAAAA
* * * ** *
18739905 AATTTTGAGCAAAAATATCTTCAAACTA-ATGAAAGAGCTATCTATTAGTTTAGGAATGCACTTT
1 AATTTTGAGCAAAAATATCTTCAAA-GAGATAAAAGAGCTATCTATTAGTTTAGAAACACACATT
*
18739969 GAATCACTTAATTTCGAGTTCGGCAGCTCAAGTTATGGCCAAGAAGACTTTACAAGCA
65 GAATCACTTAATTTCGAGTTCGGAAGCTCAAGTTATGGCCAAGAAGACTTTACAAGCA
18740027 GAAATTTCTA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
125 102 0.99
126 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (125 bp):
AATTTTGAGCAAAAATATCTTCAAAGAGATAAAAGAGCTATCTATTAGTTTAGAAACACACATTG
AATCACTTAATTTCGAGTTCGGAAGCTCAAGTTATGGCCAAGAAGACTTTACAAGCAAAA
Found at i:18746172 original size:3 final size:3
Alignment explanation
Indices: 18746107--18746157 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
18746097 TAGTTTTTTT
*
18746107 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTC TT- TTA TTTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA
18746153 TTA TT
1 TTA TT
18746158 TTCATCACAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
2 2 0.04
3 36 0.80
4 7 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:18748588 original size:22 final size:22
Alignment explanation
Indices: 18748563--18748604 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18748553 AAATTTAAAG
*
18748563 ATTTTAAAAATAAAAATTATAT
1 ATTTAAAAAATAAAAATTATAT
18748585 ATTTAAAAAATAAAAATTAT
1 ATTTAAAAAATAAAAATTAT
18748605 GAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTTAAAAAATAAAAATTATAT
Found at i:18752959 original size:22 final size:22
Alignment explanation
Indices: 18752920--18752962 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18752910 TTTAAAAATA
*
18752920 TTTATCAAAATATTTTTAAAAC
1 TTTATCAAAATATATTTAAAAC
18752942 TTTATC-AAATAATATTTAAAA
1 TTTATCAAAAT-ATATTTAAAA
18752963 TAGTAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTATCAAAATATATTTAAAAC
Found at i:18760441 original size:40 final size:40
Alignment explanation
Indices: 18760384--18760463 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
18760374 ACAGGGATTC
*
18760384 AAACTCGAGATCTGCTGAATGTCATCATGTAAAACATGAA
1 AAACTCGAGATCAGCTGAATGTCATCATGTAAAACATGAA
*
18760424 AAACTCGAGATCAGCTGAATGTCATCGTGTAAAACATGAA
1 AAACTCGAGATCAGCTGAATGTCATCATGTAAAACATGAA
18760464 TCAACTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (40 bp):
AAACTCGAGATCAGCTGAATGTCATCATGTAAAACATGAA
Found at i:18761485 original size:16 final size:16
Alignment explanation
Indices: 18761464--18761505 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
18761454 AATAAATTGA
*
18761464 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
18761480 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
18761496 TAGTTTTAAT
1 TAATTTTAAT
18761506 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:18761539 original size:23 final size:23
Alignment explanation
Indices: 18761479--18761539 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
18761469 TTACTAACAA
* *
18761479 TTAATTTTAA-TAACAATTAGTT
1 TTAATTTTAATTAAAAAATAGTT
18761501 TTAATTTT-ATTAAAAAATAGTT
1 TTAATTTTAATTAAAAAATAGTT
18761523 TTAATTTTAATTAAAAA
1 TTAATTTTAATTAAAAA
18761540 TGAGCCGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.74
23 8 0.23
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (23 bp):
TTAATTTTAATTAAAAAATAGTT
Found at i:18762211 original size:29 final size:31
Alignment explanation
Indices: 18762136--18762224 Score: 155
Period size: 31 Copynumber: 2.9 Consensus size: 31
18762126 TGGCAATTAA
18762136 TATAATATTTCTTTTATTTTTTATGAATTGT
1 TATAATATTTCTTTTATTTTTTATGAATTGT
18762167 TATAATATTTCTTTTATTTTTTATGAATTGT
1 TATAATATTTCTTTTATTTTTTATGAATTGT
*
18762198 TATAATA-TT-TTTTAATTTTTATGAATT
1 TATAATATTTCTTTTATTTTTTATGAATT
18762225 TTACATTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 17 0.30
30 2 0.04
31 38 0.67
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (31 bp):
TATAATATTTCTTTTATTTTTTATGAATTGT
Found at i:18769529 original size:125 final size:125
Alignment explanation
Indices: 18769307--18769561 Score: 501
Period size: 125 Copynumber: 2.0 Consensus size: 125
18769297 GGGCTGGCAC
18769307 CGCTACTGCTAAGCAAAACAAAATATAAGAAACAAACAATTGGGAGAAAAAAGGAGAAAAGTTTT
1 CGCTACTGCTAAGCAAAACAAAATATAAGAAACAAACAATTGGGAGAAAAAAGGAGAAAAGTTTT
18769372 TAATTGAAGTTAAATTTATATAATTTAGATATAATAATTATTTATTATAAGTTAAAAATT
66 TAATTGAAGTTAAATTTATATAATTTAGATATAATAATTATTTATTATAAGTTAAAAATT
*
18769432 CGCTACTGCTAAGCAAAACAAAATATAAGAAACAAACAATTGGGAGAAAAAATGAGAAAAGTTTT
1 CGCTACTGCTAAGCAAAACAAAATATAAGAAACAAACAATTGGGAGAAAAAAGGAGAAAAGTTTT
18769497 TAATTGAAGTTAAATTTATATAATTTAGATATAATAATTATTTATTATAAGTTAAAAATT
66 TAATTGAAGTTAAATTTATATAATTTAGATATAATAATTATTTATTATAAGTTAAAAATT
18769557 CGCTA
1 CGCTA
18769562 ATAAATTAAT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 129 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (125 bp):
CGCTACTGCTAAGCAAAACAAAATATAAGAAACAAACAATTGGGAGAAAAAAGGAGAAAAGTTTT
TAATTGAAGTTAAATTTATATAATTTAGATATAATAATTATTTATTATAAGTTAAAAATT
Found at i:18777482 original size:46 final size:46
Alignment explanation
Indices: 18777415--18777598 Score: 368
Period size: 46 Copynumber: 4.0 Consensus size: 46
18777405 TAAAACATTA
18777415 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
1 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
18777461 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
1 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
18777507 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
1 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
18777553 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
1 CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
18777599 TAACTCCGTT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 138 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (46 bp):
CAAGTTTCGCTTATTTCTTATTCGCTAACTCGATTGATGATTTAAT
Found at i:18780714 original size:16 final size:16
Alignment explanation
Indices: 18780674--18780715 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
18780664 ATTATCATAA
18780674 AATTTA-TTAAATTAT
1 AATTTATTTAAATTAT
*
18780689 AATTTTTTTAAATTTAT
1 AATTTATTTAAA-TTAT
18780706 AA-TTATTTAA
1 AATTTATTTAA
18780716 TAATATGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTATTTAAATTAT
Found at i:18783302 original size:21 final size:20
Alignment explanation
Indices: 18783278--18783327 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18783268 TTTACATATT
*
18783278 TTAAAATTTATCA-ATATATGA
1 TTAAAATTT-TCATAT-TATAA
18783299 TTAAAATTTTCATATTATAA
1 TTAAAATTTTCATATTATAA
18783319 TT-AAATTTT
1 TTAAAATTTT
18783328 TGCTTATTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 7 0.26
20 9 0.33
21 11 0.41
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAAAATTTTCATATTATAA
Found at i:18783323 original size:20 final size:20
Alignment explanation
Indices: 18783278--18783327 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
18783268 TTTACATATT
*
18783278 TTAAAATTTATCAATATATGA
1 TTAAAATTT-TCAATATATAA
18783299 TTAAAATTTTC-ATATTATAA
1 TTAAAATTTTCAATA-TATAA
18783319 TT-AAATTTT
1 TTAAAATTTT
18783328 TGCTTATTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 8 0.30
21 9 0.33
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAAAATTTTCAATATATAA
Found at i:18785760 original size:27 final size:27
Alignment explanation
Indices: 18785680--18785761 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
18785670 ACTTTAACAT
* *
18785680 TTAGATAGTCC-TCTGAACTTCCCACA
1 TTAGATAGTCCTTATGAACTTCCCATA
*
18785706 TTAGATAGTCCTTATGGACTTCCCATA
1 TTAGATAGTCCTTATGAACTTCCCATA
* * *
18785733 TTAGGTAGTCCTTGTGAACTTCCTATA
1 TTAGATAGTCCTTATGAACTTCCCATA
18785760 TT
1 TT
18785762 TCTGGTAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 11 0.23
27 37 0.77
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (27 bp):
TTAGATAGTCCTTATGAACTTCCCATA
Found at i:18787790 original size:15 final size:14
Alignment explanation
Indices: 18787765--18787795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18787755 GAAGAGGTAA
18787765 AAATATTTTTTTTT
1 AAATATTTTTTTTT
18787779 AAATACTTTTTTTTT
1 AAATA-TTTTTTTTT
18787794 AA
1 AA
18787796 TTTCTAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
AAATATTTTTTTTT
Found at i:18787920 original size:60 final size:59
Alignment explanation
Indices: 18787792--18787921 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 59
18787782 TACTTTTTTT
* * * * * * *
18787792 TTAATTTCTAGAGTTAGGACTAAATTGACAGATTTTATAAATGTTGAGGGACAAATTTA
1 TTAATTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGACAAAATTA
* * *
18787851 TTATTTTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGG-CTAAAATTG
1 TTA-ATTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGAC-AAAATTA
18787911 TTGAATTTTTA
1 TT-AATTTTTA
18787922 TATTTAGGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
59 4 0.07
60 52 0.91
61 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (59 bp):
TTAATTTTTAGAATTAGAACTAAAATGACAAATTTTATAAATATTGAGGGACAAAATTA
Found at i:18792779 original size:35 final size:35
Alignment explanation
Indices: 18792732--18792808 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
18792722 CGTGCTCATG
18792732 ATTTGAGT-GAAATTTTCTT-TAACAAATTTATAAAA
1 ATTTGA-TAGAAATTTT-TTGTAACAAATTTATAAAA
*
18792767 ATTTGATAGAAATTTTTTGTAACAAGTTTATAAAA
1 ATTTGATAGAAATTTTTTGTAACAAATTTATAAAA
18792802 A-TTGATA
1 ATTTGATA
18792809 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 9 0.23
35 30 0.77
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (35 bp):
ATTTGATAGAAATTTTTTGTAACAAATTTATAAAA
Found at i:18800504 original size:18 final size:19
Alignment explanation
Indices: 18800481--18800518 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18800471 TCAAATACAT
*
18800481 ATTAAAATATTTA-TAAAA
1 ATTAAAATATATATTAAAA
18800499 ATTAAAATATATATTAAAA
1 ATTAAAATATATATTAAAA
18800518 A
1 A
18800519 AATCGATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAAATATATATTAAAA
Found at i:18802227 original size:22 final size:23
Alignment explanation
Indices: 18802184--18802227 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
18802174 CCAAAAAATA
*
18802184 AATTTAGACAATAAAATTAAGTC
1 AATTTAGACAATAAAATAAAGTC
18802207 AATTTA-A-AATATAAATAAAGT
1 AATTTAGACAATA-AAATAAAGT
18802228 TTGAGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (23 bp):
AATTTAGACAATAAAATAAAGTC
Found at i:18803766 original size:162 final size:163
Alignment explanation
Indices: 18803568--18803906 Score: 648
Period size: 162 Copynumber: 2.1 Consensus size: 163
18803558 AATTATATTT
*
18803568 ATCAAA-GAATC-TAAATATATTCTATATTTAATTTTAAATAATACAAAATACATATTTTATAAA
1 ATCAAAGGAATCGAAAATATATTCTATATTTAATTTTAAATAATACAAAATACATATTTTATAAA
18803631 TAAAATTCAACAATTAATTTTTTATTTTCTTGCACCAACATAAATCCCGTTTATTCTTATAGTTA
66 TAAAATTCAACAATTAATTTTTTATTTTCTTGCACCAACATAAATCCCGTTTATTCTTATAGTTA
18803696 TTTTTTTGGTGAGTAATAAAATCAAACAATTGC
131 TTTTTTTGGTGAGTAATAAAATCAAACAATTGC
18803729 ATCAAAGGAATCGAAAATATATTCTA-ATTTAATTTTAAATAATACAAAATACATATTTTATAAA
1 ATCAAAGGAATCGAAAATATATTCTATATTTAATTTTAAATAATACAAAATACATATTTTATAAA
18803793 TAAAATTCAACAATTAATTTTTTATTTTCTTGCACCAACATAAATCCCGTTTATTCTTATAGTTA
66 TAAAATTCAACAATTAATTTTTTATTTTCTTGCACCAACATAAATCCCGTTTATTCTTATAGTTA
18803858 TTTTTTTGGTGAGTAATAAAATCAAACAATTGC
131 TTTTTTTGGTGAGTAATAAAATCAAACAATTGC
18803891 ATCAAAGGAATCGAAA
1 ATCAAAGGAATCGAAA
18803907 CTAGCCGTAT
Statistics
Matches: 175, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
161 6 0.03
162 157 0.90
163 12 0.07
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (163 bp):
ATCAAAGGAATCGAAAATATATTCTATATTTAATTTTAAATAATACAAAATACATATTTTATAAA
TAAAATTCAACAATTAATTTTTTATTTTCTTGCACCAACATAAATCCCGTTTATTCTTATAGTTA
TTTTTTTGGTGAGTAATAAAATCAAACAATTGC
Found at i:18810841 original size:18 final size:19
Alignment explanation
Indices: 18810820--18810861 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
18810810 AGTTTTGATA
18810820 AATTTAATAT-TTTTTAAT
1 AATTTAATATATTTTTAAT
18810838 AATTTAATATATTTTTAAT
1 AATTTAATATATTTTTAAT
*
18810857 TATTT
1 AATTT
18810862 TTAGCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTAATATATTTTTAAT
Found at i:18810864 original size:10 final size:11
Alignment explanation
Indices: 18810822--18810864 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
18810812 TTTTGATAAA
18810822 TTTAATAT-TT
1 TTTAATATATT
18810832 TTTAATA-A--
1 TTTAATATATT
18810840 TTTAATATATT
1 TTTAATATATT
18810851 TTTAAT-TATT
1 TTTAATATATT
18810861 TTTA
1 TTTA
18810865 GCAAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.24
9 1 0.03
10 15 0.52
11 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAATATATT
Found at i:18812638 original size:17 final size:20
Alignment explanation
Indices: 18812611--18812652 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
18812601 TTTCCTCTTT
*
18812611 TTTTTTCAATA-ATCTA-AA
1 TTTTTTCAATACATCAATAA
18812629 TTTTTT-AATACATCAATAA
1 TTTTTTCAATACATCAATAA
18812648 TTTTT
1 TTTTT
18812653 CGAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTTCAATACATCAATAA
Found at i:18821575 original size:26 final size:26
Alignment explanation
Indices: 18821526--18821575 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18821516 ATAAAAACCC
* *
18821526 AGAAAAGAAGCTAACTAACCTCCAAA
1 AGAAAAGAAGCTAACAAACATCCAAA
18821552 AGAAAAGAAGCTAGA-AAACATCCA
1 AGAAAAGAAGCTA-ACAAACATCCA
18821576 TTGGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.56, C:0.20, G:0.14, T:0.10
Consensus pattern (26 bp):
AGAAAAGAAGCTAACAAACATCCAAA
Found at i:18823507 original size:3 final size:3
Alignment explanation
Indices: 18823499--18823524 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18823489 CCATTTACCT
18823499 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
18823525 GACAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18834290 original size:22 final size:22
Alignment explanation
Indices: 18834264--18834306 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18834254 TGTTGTTGTT
*
18834264 TTGCTACCATTTCGTTATTATA
1 TTGCTACCATTTCATTATTATA
* *
18834286 TTGCTACTATTTTATTATTAT
1 TTGCTACCATTTCATTATTAT
18834307 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTTCATTATTATA
Found at i:18837078 original size:5 final size:5
Alignment explanation
Indices: 18837068--18837097 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
18837058 AAAATATTTA
18837068 ATAAT ATAAT ATAAT ATAAT ATAATT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAA-T ATAA
18837098 AGAATGGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:18841897 original size:41 final size:41
Alignment explanation
Indices: 18841848--18841956 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
18841838 GACTTTAAGT
* *
18841848 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTACAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTACAAAC
* **
18841889 CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTACAAAC
* *
18841930 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
18841957 TTTTAATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 55 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTACAAAC
Found at i:18843349 original size:20 final size:19
Alignment explanation
Indices: 18843324--18843374 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
18843314 AAAAATTACA
*
18843324 AAAAATTCAAAATAGTTTT
1 AAAAATTCAAAATAATTTT
**
18843343 CAAAAATTTTAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
18843363 TAAAATTCAAAA
1 AAAAATTCAAAA
18843375 CATTTATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:18843389 original size:20 final size:20
Alignment explanation
Indices: 18843364--18843402 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18843354 AATAATTTTT
18843364 AAAATT-CAAAACATTTATAA
1 AAAATTCCAAAA-ATTTATAA
18843384 AAAATTCCAAAAATTTATA
1 AAAATTCCAAAAATTTATA
18843403 TACATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTCCAAAAATTTATAA
Found at i:18846301 original size:9 final size:9
Alignment explanation
Indices: 18846287--18846335 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
18846277 TTTGGTTAAA
18846287 AATTAACCG
1 AATTAACCG
18846296 AATTAACCG
1 AATTAACCG
*
18846305 AATTACCCG
1 AATTAACCG
*
18846314 AATTAACTG
1 AATTAACCG
18846323 AATTAACCG
1 AATTAACCG
18846332 AATT
1 AATT
18846336 GAATCCCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:18846462 original size:21 final size:21
Alignment explanation
Indices: 18846436--18846478 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18846426 GTAATTTTTA
18846436 TGATTGGGTTGGGATGAATAC
1 TGATTGGGTTGGGATGAATAC
*
18846457 TGATTGGGTTGGGTTGAATAC
1 TGATTGGGTTGGGATGAATAC
18846478 T
1 T
18846479 TGAGTTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.37, T:0.37
Consensus pattern (21 bp):
TGATTGGGTTGGGATGAATAC
Found at i:18849473 original size:20 final size:20
Alignment explanation
Indices: 18849448--18849485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18849438 GAATGGAAAA
18849448 TAAAAAAAA-AACAAGAAAGT
1 TAAAAAAAATAA-AAGAAAGT
18849468 TAAAAAAAATAAAAGAAA
1 TAAAAAAAATAAAAGAAA
18849486 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (20 bp):
TAAAAAAAATAAAAGAAAGT
Found at i:18849493 original size:23 final size:22
Alignment explanation
Indices: 18849449--18849494 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
18849439 AATGGAAAAT
* *
18849449 AAAAAAAAAACAAGAAAGTTAA
1 AAAAAAAAAACAAAAAAATTAA
*
18849471 AAAAAATAAAAGAAAAAAATTAA
1 AAAAAA-AAAACAAAAAAATTAA
18849494 A
1 A
18849495 TTGCTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (22 bp):
AAAAAAAAAACAAAAAAATTAA
Found at i:18855476 original size:15 final size:15
Alignment explanation
Indices: 18855456--18855485 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18855446 GATGCATTGC
18855456 ATGCATTTATCATGA
1 ATGCATTTATCATGA
*
18855471 ATGCATTTATTATGA
1 ATGCATTTATCATGA
18855486 GAATATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
ATGCATTTATCATGA
Found at i:18856479 original size:1 final size:1
Alignment explanation
Indices: 18856468--18856514 Score: 76
Period size: 1 Copynumber: 47.0 Consensus size: 1
18856458 AGAATATTAG
* *
18856468 TTTTGTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18856515 GACAATTGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (1 bp):
T
Found at i:18857239 original size:2 final size:2
Alignment explanation
Indices: 18857232--18857263 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18857222 AACTACCAAA
18857232 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18857264 GTTAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18860565 original size:28 final size:28
Alignment explanation
Indices: 18860497--18860566 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
18860487 ATAATAGTCT
**
18860497 TTTTCCTTGCATTTCATATCTTAATGTA
1 TTTTCCTTGCATTTCATATCTTAATACA
*
18860525 TTTT-CTCTACATTTCATATCTTAATACA
1 TTTTCCT-TGCATTTCATATCTTAATACA
18860553 TTTTCCTTGCATTT
1 TTTTCCTTGCATTT
18860567 AATCTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.06
28 32 0.89
29 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.04, T:0.54
Consensus pattern (28 bp):
TTTTCCTTGCATTTCATATCTTAATACA
Found at i:18863896 original size:11 final size:11
Alignment explanation
Indices: 18863880--18863904 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18863870 TTTTTATGTT
18863880 AAAAAAAATAA
1 AAAAAAAATAA
18863891 AAAAAAAATAA
1 AAAAAAAATAA
18863902 AAA
1 AAA
18863905 TTTCAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:18868748 original size:15 final size:15
Alignment explanation
Indices: 18868723--18868758 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18868713 TTTTGATTGT
18868723 TTCTT-TTGTTCTCG
1 TTCTTGTTGTTCTCG
*
18868737 TTCTTGTTGTTCTTG
1 TTCTTGTTGTTCTCG
18868752 TTCTTGT
1 TTCTTGT
18868759 GTCTGTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (15 bp):
TTCTTGTTGTTCTCG
Found at i:18870280 original size:21 final size:21
Alignment explanation
Indices: 18870239--18870281 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18870229 TATAAAGTAG
*
18870239 ATTATAAATTATTTTTATAGT
1 ATTATAAATTATATTTATAGT
*
18870260 ATTATATATTATGATTT-TAGT
1 ATTATAAATTAT-ATTTATAGT
18870281 A
1 A
18870282 AATTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATAAATTATATTTATAGT
Found at i:18885127 original size:3 final size:3
Alignment explanation
Indices: 18885113--18885144 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18885103 TATTCCACTT
*
18885113 CCA CCT CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
18885145 TCCTCCTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.69, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:18885634 original size:3 final size:3
Alignment explanation
Indices: 18885626--18885651 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18885616 TACCCCCCTG
18885626 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
18885652 TACTAGACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:18885855 original size:39 final size:39
Alignment explanation
Indices: 18885812--18885895 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
18885802 TGCCCCTCCT
*
18885812 CCTCCACCTCCACCACC-CTCATTGAAGTCCACTGCCCCA
1 CCTCCACCCCCACCACCGC-CATTGAAGTCCACTGCCCCA
* * * *
18885851 CCTCCACCCCCTCCACCGCCATTGATGTCTAGTGCCCCA
1 CCTCCACCCCCACCACCGCCATTGAAGTCCACTGCCCCA
18885890 CCTCCA
1 CCTCCA
18885896 AAATTTGGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.18, C:0.54, G:0.10, T:0.19
Consensus pattern (39 bp):
CCTCCACCCCCACCACCGCCATTGAAGTCCACTGCCCCA
Found at i:18886152 original size:30 final size:32
Alignment explanation
Indices: 18886116--18886266 Score: 144
Period size: 33 Copynumber: 4.7 Consensus size: 32
18886106 GCTCCACCCC
* *
18886116 CACCACCTCCACCTGC-T-CGTGGAGCACCAG
1 CACCACCCCCACCTCCATGCGTGGAGCACCAG
*
18886146 CACCACCCCCACCTCCTATGCGTGGAGCACCTG
1 CACCACCCCCACCTCC-ATGCGTGGAGCACCAG
* * * *
18886179 CACCGCCCCCCCCTCCTATGCGTGGGGCACCTG
1 CACCACCCCCACCTCC-ATGCGTGGAGCACCAG
* * * *
18886212 CACCGCCCCCCCCTCCTATGCGTGGGGCACCTG
1 CACCACCCCCACCTCC-ATGCGTGGAGCACCAG
*
18886245 CACCGCCCCCACCTCCTATGCG
1 CACCACCCCCACCTCC-ATGCG
18886267 GGGGGCTCCT
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
30 14 0.13
32 1 0.01
33 96 0.86
ACGTcount: A:0.14, C:0.51, G:0.21, T:0.15
Consensus pattern (32 bp):
CACCACCCCCACCTCCATGCGTGGAGCACCAG
Found at i:18886272 original size:33 final size:33
Alignment explanation
Indices: 18886133--18886281 Score: 217
Period size: 33 Copynumber: 4.5 Consensus size: 33
18886123 TCCACCTGCT
* * *
18886133 CGTGGAGCACCAGCACCACCCCCACCTCCTATG
1 CGTGGGGCACCTGCACCGCCCCCACCTCCTATG
* *
18886166 CGTGGAGCACCTGCACCGCCCCCCCCTCCTATG
1 CGTGGGGCACCTGCACCGCCCCCACCTCCTATG
*
18886199 CGTGGGGCACCTGCACCGCCCCCCCCTCCTATG
1 CGTGGGGCACCTGCACCGCCCCCACCTCCTATG
18886232 CGTGGGGCACCTGCACCGCCCCCACCTCCTATG
1 CGTGGGGCACCTGCACCGCCCCCACCTCCTATG
* * *
18886265 CGGGGGGCTCCTCCACC
1 CGTGGGGCACCTGCACC
18886282 TCCTCCAGGT
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 108 1.00
ACGTcount: A:0.13, C:0.50, G:0.23, T:0.14
Consensus pattern (33 bp):
CGTGGGGCACCTGCACCGCCCCCACCTCCTATG
Found at i:18900251 original size:25 final size:26
Alignment explanation
Indices: 18900218--18900268 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
18900208 AAAAGGAAAA
*
18900218 AAATCTAAT-TTATTTATTAATGTATG
1 AAATCTAATATT-TTTATTAATATATG
*
18900244 AAAT-TAATATTTTTTTTAATATATG
1 AAATCTAATATTTTTATTAATATATG
18900269 GATGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
AAATCTAATATTTTTATTAATATATG
Found at i:18907269 original size:18 final size:18
Alignment explanation
Indices: 18907229--18907282 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
18907219 TGTCTCTGTC
* *
18907229 TTCCCTATATCGATC-CC
1 TTCCCTATCTCGATCACG
18907246 TATCCCTATCTCGATCACG
1 T-TCCCTATCTCGATCACG
*
18907265 TTCCCTATCACGATCACG
1 TTCCCTATCTCGATCACG
18907283 GTCACGATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.03
18 29 0.91
19 2 0.06
ACGTcount: A:0.20, C:0.39, G:0.09, T:0.31
Consensus pattern (18 bp):
TTCCCTATCTCGATCACG
Found at i:18907287 original size:24 final size:24
Alignment explanation
Indices: 18907242--18907288 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
18907232 CCTATATCGA
* * *
18907242 TCCCTATCCCTATCTCGATCACGT
1 TCCCTATCACGATCACGATCACGT
*
18907266 TCCCTATCACGATCACGGTCACG
1 TCCCTATCACGATCACGATCACG
18907289 ATCTCTAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.40, G:0.13, T:0.28
Consensus pattern (24 bp):
TCCCTATCACGATCACGATCACGT
Found at i:18908563 original size:18 final size:18
Alignment explanation
Indices: 18908540--18908578 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
18908530 CAACCATAGT
*
18908540 ACCGCCACCCACACTGCC
1 ACCGCCACCAACACTGCC
18908558 ACCGCCACCAACACTGCC
1 ACCGCCACCAACACTGCC
18908576 ACC
1 ACC
18908579 AGGGCCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.59, G:0.10, T:0.05
Consensus pattern (18 bp):
ACCGCCACCAACACTGCC
Found at i:18913441 original size:16 final size:18
Alignment explanation
Indices: 18913420--18913460 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
18913410 AAATGAAGGA
18913420 ATAAAAT-AA-TTTTTTT
1 ATAAAATAAATTTTTTTT
18913436 ATAAAATAAATTTTTTTT
1 ATAAAATAAATTTTTTTT
18913454 ATAAAAT
1 ATAAAAT
18913461 TCGAGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAAATAAATTTTTTTT
Found at i:18915660 original size:5 final size:5
Alignment explanation
Indices: 18915650--18915679 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
18915640 NNNNNNNNNN
18915650 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
18915680 TATTATCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:18918575 original size:16 final size:18
Alignment explanation
Indices: 18918554--18918594 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
18918544 AAATGAAGGA
18918554 ATAAAAT-AA-TTTTTTT
1 ATAAAATAAATTTTTTTT
18918570 ATAAAATAAATTTTTTTT
1 ATAAAATAAATTTTTTTT
18918588 ATAAAAT
1 ATAAAAT
18918595 TTGAGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAAATAAATTTTTTTT
Found at i:18919918 original size:17 final size:18
Alignment explanation
Indices: 18919893--18919932 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
18919883 TTAACTGTAG
*
18919893 AAAAATGTTCTCA-ATAT
1 AAAATTGTTCTCACATAT
*
18919910 AAAATTGTTCTCACTTAT
1 AAAATTGTTCTCACATAT
18919928 AAAAT
1 AAAAT
18919933 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCACATAT
Found at i:18920111 original size:15 final size:15
Alignment explanation
Indices: 18920091--18920121 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18920081 AAAACAACAT
18920091 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
18920106 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
18920121 A
1 A
18920122 CTTACATAAC
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:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:18924207 original size:17 final size:18
Alignment explanation
Indices: 18924182--18924221 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
18924172 CAAATTGTAG
*
18924182 AAAAATGTTCTCA-ATAT
1 AAAATTGTTCTCACATAT
*
18924199 AAAATTGTTCTCACTTAT
1 AAAATTGTTCTCACATAT
18924217 AAAAT
1 AAAAT
18924222 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCACATAT
Found at i:18924399 original size:17 final size:17
Alignment explanation
Indices: 18924377--18924414 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18924367 TAAAAAACAA
*
18924377 CATAACTCTTGACCTTT
1 CATAACCCTTGACCTTT
18924394 CATAACCCTTGACCTTT
1 CATAACCCTTGACCTTT
18924411 CATA
1 CATA
18924415 TAACATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (17 bp):
CATAACCCTTGACCTTT
Found at i:18939616 original size:34 final size:33
Alignment explanation
Indices: 18939518--18939630 Score: 147
Period size: 34 Copynumber: 3.4 Consensus size: 33
18939508 TTTAGTGTTC
* *
18939518 TTTTTTAAAAATTAATTAAATTAGGGTTTAAGAG
1 TTTTTAAAAAATTAATTAAATTAGGGTTT-AGTG
*
18939552 -TTTTAAATAAATTAATTAAATTAGTGTTTAGTG
1 TTTTTAAA-AAATTAATTAAATTAGGGTTTAGTG
* *
18939585 TTTTTAAGAAAATTACTTAAATTAGGGTTTAGTT
1 TTTTTAA-AAAATTAATTAAATTAGGGTTTAGTG
18939619 TTTTTAAAAAAT
1 TTTTTAAAAAAT
18939631 AATATTGTGT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
33 14 0.20
34 55 0.79
35 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
Found at i:18940142 original size:125 final size:127
Alignment explanation
Indices: 18939691--18940211 Score: 739
Period size: 126 Copynumber: 4.1 Consensus size: 127
18939681 ATTTTATTTT
* * *
18939691 TTTTTCCACAGTAGTTCCTGAAAAAATAAATTTGAGAATACGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
*
18939756 ACACTTCAAGCA-AGATGCACTGTCAGCAAAATTACTG-AAAAAAGCTCCCACGTGGACTCTC
66 ACACTTCAAGCAGA-ATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
* * * *
18939817 TTTTTCTACATTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTATGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
** * * *
18939882 ATGCTTCAATCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGATCCCACGTGGACGCTC
66 ACACTTCAAGCAGAATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
* * * *
18939943 TTTTTCTACAGTAGTTCCTGAAAAAATAAGTTTGAGAAGATGATTCTGAACAAACAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
** * *
18940008 ATGCTTCAAGCAGAATGCACTGTCAGCAAAATTATTGAAAAAAA-CTCCCACGTGGACACTC
66 ACACTTCAAGCAGAATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
* * * *
18940069 TTTTT-TACAGTAGTTCTTGCAAAAATAATTTTAAGAAGACGGCTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* *
18940133 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAAGCTCCCACGTCGACGCTC
66 ACACTTCAAGCAGAATGCACTGTCAGCAAAATT-ACTGAAAAAAAGCTCCCACGTGGACGCTC
18940195 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
18940212 ATGTTTGGCC
Statistics
Matches: 351, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
125 90 0.26
126 243 0.69
127 18 0.05
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (127 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
ACACTTCAAGCAGAATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
Found at i:18944771 original size:24 final size:23
Alignment explanation
Indices: 18944715--18944771 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
18944705 AAGAACTTCT
*
18944715 ATTTTATTAAAAATATAAAAAGA
1 ATTTTATTAAAAATATAAAAACA
* *
18944738 ATTTACTATTAAAATTTTAAAAACA
1 ATTT--TATTAAAAATATAAAAACA
18944763 ACTTTTATT
1 A-TTTTATT
18944772 TTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 17 0.61
26 3 0.11
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:18959225 original size:17 final size:18
Alignment explanation
Indices: 18959191--18959226 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18959181 TTAGCAATTC
*
18959191 TGTTTCTATTTCTTCTTT
1 TGTTTCTATTTATTCTTT
18959209 TGTTTCT-TTTATTCTTT
1 TGTTTCTATTTATTCTTT
18959226 T
1 T
18959227 ATTTTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (18 bp):
TGTTTCTATTTATTCTTT
Found at i:18959259 original size:3 final size:3
Alignment explanation
Indices: 18959251--18959316 Score: 114
Period size: 3 Copynumber: 21.7 Consensus size: 3
18959241 ATGCATTAGT
18959251 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
18959299 TAA TAA TATA TTA TAA TA
1 TAA TAA TA-A TAA TAA TA
18959317 TTATNNNNNN
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 58 0.97
4 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18979577 original size:1 final size:1
Alignment explanation
Indices: 18979571--18979595 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18979561 AGCCTTTGTG
18979571 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
18979596 GTAGGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18981693 original size:18 final size:18
Alignment explanation
Indices: 18981670--18981706 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18981660 AAGCACACAA
18981670 TCTCATCAAATATGTTAG
1 TCTCATCAAATATGTTAG
18981688 TCTCATCAAATATGTTAG
1 TCTCATCAAATATGTTAG
18981706 T
1 T
18981707 TATTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (18 bp):
TCTCATCAAATATGTTAG
Found at i:18982044 original size:25 final size:25
Alignment explanation
Indices: 18982016--18982089 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
18982006 AGCTTAATAA
*
18982016 CGGGAAGCTCACAAAGAGC-C-TATAT
1 CGGGAAGCTC-CGAAGAGCACTTA-AT
*
18982041 CGGGTAGCTCCGAAGAGCACTTAAT
1 CGGGAAGCTCCGAAGAGCACTTAAT
*
18982066 -GGGAAGCTCCGAAGAGCATTTAAT
1 CGGGAAGCTCCGAAGAGCACTTAAT
18982090 TAGAAAACAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
24 29 0.67
25 12 0.28
26 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCCGAAGAGCACTTAAT
Found at i:18983790 original size:21 final size:21
Alignment explanation
Indices: 18983764--18983917 Score: 85
Period size: 21 Copynumber: 7.3 Consensus size: 21
18983754 CCGAAGGTTG
*
18983764 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
18983785 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
** * *
18983806 AATGGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * * *
18983827 AACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
18983848 AACAGAAGCTCGAT-AGAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
** * * *
18983869 AATGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* **
18983890 AACAGAAGCTCGTGTGAGCTA
1 AACAGAAGCTCATAAGAGCTA
18983911 AACAGAA
1 AACAGAA
18983918 AGTAAACACG
Statistics
Matches: 95, Mismatches: 36, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
20 2 0.02
21 91 0.96
22 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:18983806 original size:42 final size:42
Alignment explanation
Indices: 18983759--18983918 Score: 169
Period size: 42 Copynumber: 3.8 Consensus size: 42
18983749 GAAGCCCGAA
*
18983759 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAG
1 GGTTAAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAG
* ** * * * *
18983801 GGTTGAATGGAAGCTCGTAAGAGCTGAACGGAAACCCATAAG
1 GGTTAAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAG
** * *
18983843 GGTTAAACAGAAGCTCGAT-AGAGCTAAATGGAAACTCATATG
1 GGTTAAACAGAAGCTC-ATGAGAGCTAAACAGAAACCCATAAG
* * *
18983885 AGTTAAACAGAAGCTCGTGTGAGCTAAACAGAAA
1 GGTTAAACAGAAGCTCATGAGAGCTAAACAGAAA
18983919 GTAAACACGA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 95 0.98
43 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (42 bp):
GGTTAAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAG
Found at i:18983909 original size:84 final size:84
Alignment explanation
Indices: 18983759--18983918 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 84
18983749 GAAGCCCGAA
* * * **
18983759 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTGAATGGAAGCTCGTAAGAG
1 GGTTAAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAG
* *
18983824 CTGAACGGAAACCCATAAG
66 CTAAACAGAAACCCATAAG
** * * **
18983843 GGTTAAACAGAAGCTCGAT-AGAGCTAAATGGAAACTCATATGAGTTAAACAGAAGCTCGTGTGA
1 GGTTAAACAGAAGCTC-ATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGA
18983907 GCTAAACAGAAA
65 GCTAAACAGAAA
18983919 GTAAACACGA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
84 60 0.97
85 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (84 bp):
GGTTAAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAG
CTAAACAGAAACCCATAAG
Found at i:18984350 original size:9 final size:9
Alignment explanation
Indices: 18984338--18984366 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
18984328 AATTATCCTA
18984338 AACTTTTAC
1 AACTTTTAC
18984347 AACTTTTAC
1 AACTTTTAC
18984356 AACTTTTAC
1 AACTTTTAC
18984365 AA
1 AA
18984367 TCTAGTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (9 bp):
AACTTTTAC
Found at i:18985001 original size:21 final size:21
Alignment explanation
Indices: 18984977--18985018 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18984967 CTTTTTAATT
18984977 AATTAACTATCGAAACGTTAA
1 AATTAACTATCGAAACGTTAA
** *
18984998 AATTTTCTATCGAAACTTTAA
1 AATTAACTATCGAAACGTTAA
18985019 TACTACCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (21 bp):
AATTAACTATCGAAACGTTAA
Found at i:18990497 original size:13 final size:13
Alignment explanation
Indices: 18990479--18990510 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18990469 GTGCAGGAGT
*
18990479 CACACGGCCAAGC
1 CACACGGACAAGC
18990492 CACACGGACAAGC
1 CACACGGACAAGC
18990505 CACACG
1 CACACG
18990511 TCCGTGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.44, G:0.22, T:0.00
Consensus pattern (13 bp):
CACACGGACAAGC
Found at i:18991482 original size:42 final size:42
Alignment explanation
Indices: 18991417--18991576 Score: 139
Period size: 42 Copynumber: 3.8 Consensus size: 42
18991407 GAAGCCCGAA
* * *
18991417 GGTTGAACAGAAGCTCATGAGAGCTAAAC-AGAAACCCATAAG
1 GGTTGAACAGAAGCTCGTAAGAGCTAAACGA-AAAACCATAAG
* * *
18991459 GGTTGAACGGGAGCTCGTAAGAGCTGAACGAAAAACCATAAG
1 GGTTGAACAGAAGCTCGTAAGAGCTAAACGAAAAACCATAAG
* *
18991501 GGTTAAACAGAAGCTCG-ATAGAGCTAAGCG-AAAACTCATATA-
1 GGTTGAACAGAAGCTCGTA-AGAGCTAAACGAAAAAC-CATA-AG
* * **
18991543 AGTTGAATAGAAGCTCGTGTGAGCTAAACAGAAA
1 GGTTGAACAGAAGCTCGTAAGAGCTAAAC-GAAA
18991577 TTAAACACGA
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 6 0.06
42 83 0.88
43 3 0.03
44 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCGTAAGAGCTAAACGAAAAACCATAAG
Found at i:18998566 original size:10 final size:10
Alignment explanation
Indices: 18998551--18998576 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18998541 TCAGTTAAAC
18998551 TTGATATAAT
1 TTGATATAAT
18998561 TTGATATAAT
1 TTGATATAAT
18998571 TTGATA
1 TTGATA
18998577 ATTTTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (10 bp):
TTGATATAAT
Found at i:18998698 original size:19 final size:19
Alignment explanation
Indices: 18998650--18998700 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
18998640 ATATAATTTG
18998650 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
18998669 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
18998685 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
18998701 AATGTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
19 10 0.40
20 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:18998760 original size:44 final size:40
Alignment explanation
Indices: 18998671--18998800 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 40
18998661 AACAATTAAT
*
18998671 ACAATTAACAATTAATAATTTTACTAACAAAATGTTAGTA
1 ACAATTAATAATTAATAATTTTACTAACAAAATGTTAGTA
*
18998711 ACAATTAATAATTAATAATTTGATA-TAATCTAATAATTTTAGTA
1 ACAATTAATAATTAATAATTT--TACTAA-C-AA-AATGTTAGTA
18998755 ACAATTAATACAATTAACAATTAATAATTTACTAACAAAATGTTAG
1 ACAATTAAT--AATT---AA-TAAT--TTTACTAACAAAATGTTAG
18998801 ATTTTACAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
40 20 0.27
41 3 0.04
42 3 0.04
43 2 0.03
44 18 0.25
46 4 0.05
48 7 0.10
49 4 0.05
50 7 0.10
51 3 0.04
52 2 0.03
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (40 bp):
ACAATTAATAATTAATAATTTTACTAACAAAATGTTAGTA
Found at i:18998777 original size:93 final size:92
Alignment explanation
Indices: 18998618--18998800 Score: 321
Period size: 93 Copynumber: 2.0 Consensus size: 92
18998608 AACAATTTAT
* *
18998618 ACAATTAAAAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAAAAATTAATAATTTGATATAATCTAATAATTTTACTAACAATTAATACAATTAACAAT
18998683 TAATAATTTTACTAACAAAATGTTAGTA
66 TAATAA-TTTACTAACAAAATGTTAGTA
* *
18998711 ACAATTAATAATTAATAATTTGATATAATCTAATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAAAAATTAATAATTTGATATAATCTAATAATTTTACTAACAATTAATACAATTAACAAT
18998776 TAATAATTTACTAACAAAATGTTAG
66 TAATAATTTACTAACAAAATGTTAG
18998801 ATTTTACAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 19 0.22
93 67 0.78
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (92 bp):
ACAATTAAAAATTAATAATTTGATATAATCTAATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTACTAACAAAATGTTAGTA
Found at i:18998864 original size:16 final size:16
Alignment explanation
Indices: 18998845--18998885 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
18998835 AATTTGATAC
18998845 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
18998861 AATTTTGATAACAATT
1 AATTTTAATAACAATT
*
18998877 AGTTTTAAT
1 AATTTTAAT
18998886 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:18998887 original size:22 final size:23
Alignment explanation
Indices: 18998859--18998919 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
18998849 TTAATAACAA
* * *
18998859 TTAATTTTGATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
18998881 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
*
18998904 TTAATTTTAATTAAAA
1 TTAATTTTAATAAAAA
18998920 GCGGGCCGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:18999917 original size:19 final size:18
Alignment explanation
Indices: 18999895--18999933 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18999885 TATGTTTATT
*
18999895 TTAAATTATAATAAATAAA
1 TTAAAATATAATAAA-AAA
*
18999914 TTAAAATATATTAAAAAA
1 TTAAAATATAATAAAAAA
18999932 TT
1 TT
18999934 GTATACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAATATAATAAAAAA
Found at i:19003437 original size:17 final size:17
Alignment explanation
Indices: 19003415--19003447 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19003405 TAAATGGCAT
19003415 GTATATAAAGAAACTTG
1 GTATATAAAGAAACTTG
19003432 GTATATAAAGAAACTT
1 GTATATAAAGAAACTT
19003448 TATTTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
GTATATAAAGAAACTTG
Found at i:19004141 original size:27 final size:27
Alignment explanation
Indices: 19004103--19004178 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
19004093 CTGGAGATAA
*
19004103 TTTTGGTGCACAAGAAAGCTTATACAG
1 TTTTGGCGCACAAGAAAGCTTATACAG
19004130 TTTTGGCGCACAAGAAAGCTTATACAG
1 TTTTGGCGCACAAGAAAGCTTATACAG
19004157 TTTTGGCGCACAAGAAAGCTTA
1 TTTTGGCGCACAAGAAAGCTTA
19004179 GGTAAGTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
TTTTGGCGCACAAGAAAGCTTATACAG
Found at i:19005068 original size:27 final size:24
Alignment explanation
Indices: 19005038--19005098 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
19005028 TGAGTTAATA
*
19005038 AATTCTCTCTGGGTTTTTCTTTTTAAG
1 AATT-TCTCTGAG-TTTT-TTTTTAAG
19005065 AATTTCTCTTGAGTTTTTTTTTAAG
1 AATTTCTC-TGAGTTTTTTTTTAAG
19005090 AATTTCTCT
1 AATTTCTCT
19005099 TCAGTTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 1 0.03
25 16 0.50
26 8 0.25
27 7 0.22
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.57
Consensus pattern (24 bp):
AATTTCTCTGAGTTTTTTTTTAAG
Found at i:19005091 original size:25 final size:25
Alignment explanation
Indices: 19005052--19005110 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
19005042 CTCTCTGGGT
*
19005052 TTTTCTTTTTAAGAATTTCTCTTGAG
1 TTTT-TTTTTAAGAATTTCTCTTCAG
19005078 TTTTTTTTTAAGAATTTCTCTTCAG
1 TTTTTTTTTAAGAATTTCTCTTCAG
*
19005103 TTTCTTTT
1 TTTTTTTT
19005111 AGAAGAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.17, C:0.12, G:0.08, T:0.63
Consensus pattern (25 bp):
TTTTTTTTTAAGAATTTCTCTTCAG
Found at i:19005269 original size:24 final size:24
Alignment explanation
Indices: 19005242--19005289 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19005232 TCAAGGCTTT
19005242 GTAGGACTTCTACACGCTACGTTC
1 GTAGGACTTCTACACGCTACGTTC
19005266 GTAGGACTTCTACACGCTACGTTC
1 GTAGGACTTCTACACGCTACGTTC
19005290 TATCTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (24 bp):
GTAGGACTTCTACACGCTACGTTC
Found at i:19005836 original size:28 final size:28
Alignment explanation
Indices: 19005794--19006122 Score: 240
Period size: 28 Copynumber: 11.7 Consensus size: 28
19005784 GACCGTGTGT
*
19005794 CCCCTATTTTCCAAATTTTATAGTTTTG
1 CCCCTATTTTTCAAATTTTATAGTTTTG
*
19005822 CCCCTATTTTTCAAATTTTATAGTTTTAT
1 CCCCTATTTTTCAAATTTTATAGTTTT-G
*
19005851 CCCCTATTTTTCAAATTTT-TAATTTTTG
1 CCCCTATTTTTCAAATTTTAT-AGTTTTG
* * * *
19005879 CCCTTATTGCTTCAAAATTTACA-TTTTG
1 CCCCTATT-TTTCAAATTTTATAGTTTTG
* * * *
19005907 TCCCCTATTTTCCCAAATCTTACAGTTTAG
1 -CCCCTATTTT-TCAAATTTTATAGTTTTG
** * * * *
19005937 CCTTTGTTTTTCATATTTTACAATTTTG
1 CCCCTATTTTTCAAATTTTATAGTTTTG
* *
19005965 TCCCCTATTTTTCAGATATTATAG-TTTG
1 -CCCCTATTTTTCAAATTTTATAGTTTTG
* * *
19005993 CCTCTATTTTTTAGATTTTATAGTTTTG
1 CCCCTATTTTTCAAATTTTATAGTTTTG
* *
19006021 CCCATATTTTTTAAATTTTATAGTTTTG
1 CCCCTATTTTTCAAATTTTATAGTTTTG
* * * * *
19006049 TCCTTATTTTTTAGATTTTACA-TTTT-
1 CCCCTATTTTTCAAATTTTATAGTTTTG
* * *
19006075 TCCATATTTTT-AAGATTTTATAGTTTTT
1 CCCCTATTTTTCAA-ATTTTATAGTTTTG
*
19006103 CCCCTGA-TTTTCAAGTTTTA
1 CCCCT-ATTTTTCAAATTTTA
19006123 AGATTTTACT
Statistics
Matches: 242, Mismatches: 45, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 17 0.07
27 28 0.12
28 116 0.48
29 76 0.31
30 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (28 bp):
CCCCTATTTTTCAAATTTTATAGTTTTG
Found at i:19005881 original size:57 final size:56
Alignment explanation
Indices: 19005793--19006122 Score: 260
Period size: 57 Copynumber: 5.9 Consensus size: 56
19005783 CGACCGTGTG
* *
19005793 TCCCCTATTTTCCAAATTTTATAGTTTTGCCCCTATTTTTCAAATTTTATAGTTTT
1 TCCCCTATTTTTCAAATTTTATAGTTTTGCCCCTATTTTTCAAATTTTACAGTTTT
* * * *
19005849 ATCCCCTATTTTTCAAATTTT-TAATTTTTGCCCTTATTGCTTCAAAATTTACA-TTTT
1 -TCCCCTATTTTTCAAATTTTAT-AGTTTTGCCCCTATT-TTTCAAATTTTACAGTTTT
* * * * ** * * *
19005906 GTCCCCTATTTTCCCAAATCTTACAGTTTAGCCTTTGTTTTTCATATTTTACAATTTT
1 -TCCCCTATTTT-TCAAATTTTATAGTTTTGCCCCTATTTTTCAAATTTTACAGTTTT
* * * * * *
19005964 GTCCCCTATTTTTCAGATATTATAG-TTTGCCTCTATTTTTTAGATTTTATAGTTTT
1 -TCCCCTATTTTTCAAATTTTATAGTTTTGCCCCTATTTTTCAAATTTTACAGTTTT
* * * * * * *
19006020 GCCCATATTTTTTAAATTTTATAGTTTTGTCCTTATTTTTTAGATTTTACA-TTTT
1 TCCCCTATTTTTCAAATTTTATAGTTTTGCCCCTATTTTTCAAATTTTACAGTTTT
* * *
19006075 T-CCATATTTTT-AAGATTTTATAGTTTTTCCCCTGA-TTTTCAAGTTTTA
1 TCCCCTATTTTTCAA-ATTTTATAGTTTTGCCCCT-ATTTTTCAAATTTTA
19006123 AGATTTTACT
Statistics
Matches: 221, Mismatches: 44, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
53 2 0.01
54 36 0.16
55 24 0.11
56 47 0.21
57 67 0.30
58 45 0.20
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (56 bp):
TCCCCTATTTTTCAAATTTTATAGTTTTGCCCCTATTTTTCAAATTTTACAGTTTT
Found at i:19006101 original size:27 final size:27
Alignment explanation
Indices: 19005970--19006104 Score: 132
Period size: 27 Copynumber: 5.0 Consensus size: 27
19005960 TTTTGTCCCC
* * * *
19005970 TATTTTTCAGATATTATAG-TTTGCCTC
1 TATTTTTAAGATTTTATAGTTTTTCC-A
* *
19005997 TATTTTTTAGATTTTATAGTTTTGCCCA
1 TATTTTTAAGATTTTATAGTTTT-TCCA
*
19006025 TATTTTTTAA-ATTTTATAGTTTTGTCCT
1 TA-TTTTTAAGATTTTATAGTTTT-TCCA
* *
19006053 TATTTTTTAGATTTTACA-TTTTTCCA
1 TATTTTTAAGATTTTATAGTTTTTCCA
19006079 TATTTTTAAGATTTTATAGTTTTTCC
1 TATTTTTAAGATTTTATAGTTTTTCC
19006105 CCTGATTTTC
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
26 19 0.21
27 34 0.37
28 30 0.33
29 8 0.09
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (27 bp):
TATTTTTAAGATTTTATAGTTTTTCCA
Found at i:19006733 original size:86 final size:85
Alignment explanation
Indices: 19006596--19006845 Score: 338
Period size: 86 Copynumber: 2.9 Consensus size: 85
19006586 TCTGCAAACA
* * **
19006596 ATGTGATTCGATTATGAACCAAGTGTTAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
1 ATGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
**
19006661 AAGCAGCAGTAATTGCAAAT
66 AAGTGGCAGTAATTGCAAAT
** *
19006681 AGTGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTATACTCACAG
1 A-TGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAA
* * **
19006746 CAAGTGGAAGTAACTATAAAT
65 CAAGTGGCAGTAATTGCAAAT
* * * *
19006767 ATGTGGTTCGATCATGAACCAAGTGGCAGTTTGTTTAATTTGCAAATATATTGTGCACCCACAAC
1 ATGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
19006832 AAGTGGCAGTAATT
66 AAGTGGCAGTAATT
19006846 ATAAATCAGC
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 70 0.49
86 72 0.51
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (85 bp):
ATGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
AAGTGGCAGTAATTGCAAAT
Found at i:19006813 original size:85 final size:85
Alignment explanation
Indices: 19006596--19006851 Score: 350
Period size: 85 Copynumber: 3.0 Consensus size: 85
19006586 TCTGCAAACA
* * **
19006596 ATGTGATTCGATTATGAACCAAGTGTTAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
1 ATGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
** **
19006661 AAGCAGCAGTAATTGCAAAT
66 AAGTGGCAGTAATTATAAAT
** *
19006681 AGTGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTATACTCACAG
1 A-TGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAA
* *
19006746 CAAGTGGAAGTAACTATAAAT
65 CAAGTGGCAGTAATTATAAAT
* * * *
19006767 ATGTGGTTCGATCATGAACCAAGTGGCAGTTTGTTTAATTTGCAAATATATTGTGCACCCACAAC
1 ATGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
19006832 AAGTGGCAGTAATTATAAAT
66 AAGTGGCAGTAATTATAAAT
19006852 CAGCTGTGGT
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 76 0.51
86 72 0.49
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (85 bp):
ATGTGGTTCGATAATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAAC
AAGTGGCAGTAATTATAAAT
Found at i:19009961 original size:30 final size:31
Alignment explanation
Indices: 19009905--19009968 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
19009895 ATTTCTTATG
* * *
19009905 CCAATATTTCGATACCTATATCTTTGACTTT
1 CCAATATTTCGATACCCAGATATTTGACTTT
19009936 CCAATATTT-GATACCCAGATATTTGACTTT
1 CCAATATTTCGATACCCAGATATTTGACTTT
19009966 CCA
1 CCA
19009969 TAATATGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (31 bp):
CCAATATTTCGATACCCAGATATTTGACTTT
Found at i:19015262 original size:23 final size:22
Alignment explanation
Indices: 19015219--19015276 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
19015209 AAAAGGTATC
* *
19015219 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
19015240 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
19015263 TACATATCATATCT
1 TACAAATCATATCT
19015277 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:19015270 original size:17 final size:17
Alignment explanation
Indices: 19015248--19015300 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
19015238 ATTACAAAAT
19015248 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
19015265 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
* *
19015284 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
19015301 TGTTTCCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Done.